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Encyclopedia results for Rfam

Rfam





Encyclopedia results for Rfam

  1. Rfam

    infobox biodatabase title Rfam logo File Rfam logo.png 120px description The Rfam database provides alignments ... standard format Stockholm format url http rfam.sanger.ac.uk Rfam download ftp ftp.sanger.ac.uk pub databases Rfam Rfam ftp webservice sql sparql webapp standalone license Public domain versioning frequency curation bookmark yes version Rfam is a database containing information about non coding RNA ... A, Eddy SR title Rfam an RNA family database journal Nucleic Acids Res. volume 31 issue 1 pages 439 ... journal author Griffiths Jones S, Moxon S, Marshall M, Khanna A, Eddy SR, Bateman A title Rfam annotating ... journal author Gardner PP, Daub J, Tate JG, et al. title Rfam updates to the RNA families database ... SR, Bateman A title Rfam Wikipedia, clans and the decimal release. journal Nucleic Acids Res volume ... Rfam is designed to be similar to the Pfam database for annotating protein families. Unlike proteins ... sequence . Rfam divides ncRNAs into families based on evolution from a common ancestor. Producing ... of secondary structure information. Rfam researchers also contribute to Wikipedia s Wikipedia ... ref name pmid21062808 Uses of Rfam The Rfam database can be used for a variety of functions. For each ... references and other RNA databases. Rfam also provides links to Wikipedia so that entries can be created or edited by users. The interface at the Rfam website allows users to search ncRNAs by keyword ... with Rfam to annotate sequences including complete genomes for homologues to known ncRNAs. Methods Image Rfam alignment2.PNG left thumb A theoretical ncRNA alignment from 6 species. Secondary structure ... information. This seed alignment is used to create the SCFG, which is used with the Rfam software ... threshold value is chosen to avoid false positives. Performing Rfam searches using profile SCFG ... full alignment. History Version 1.0 of Rfam was launched in 2003 and contained 25 ncRNA families and annotated ... http rfam.sanger.ac.uk Rfam Web site at the Sanger Institute http infernal.janelia.org INFERNAL ...   more details



  1. File:Rfam logo.png

    Summary Information Description The current logo for the Rfam database Source The Rfam website Date 12 56, 7 January 2011 UTC Author John Tate Permission Permission given to release to the public domain on 07 January 2011 other versions Licensing cc by sa 3.0 ...   more details



  1. File:Rfam alignment.PNG

    Summary I created this image, I am the author Melanie Scofield User Melsco Melsco 17 18, 2 March 2007 UTC Licensing PD self date March 2007 Orphan image Copy to Wikimedia Commons bot Fbot ...   more details



  1. File:Rfam alignment2.PNG

    Summary author Melanie Scofield Licensing PD self date March 2007 Copy to Wikimedia Commons bot Fbot priority true ...   more details



  1. File:WLE3.jpg

    Summary Diagram of WL3 Wingless localisation element 3 WLE3 from RFAM Licensing PD self date August 2008 Copy to Wikimedia Commons bot Fbot priority true ...   more details



  1. File:SNORD116 secondary structure.jpg

    Summary Structure image generated by the http rfam.sanger.ac.uk family?entry RF00108 Rfam database. Licensing self cc by sa 3.0 GFDL migration redundant Copy to Wikimedia Commons bot Fbot priority true ...   more details



  1. Pseudomonas sRNA

    structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01668 RF01668 Image P13 secondary structure.jpg P13 Secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family ... Rfam database. Family http rfam.sanger.ac.uk family RF01670 RF01670 Image P18 secondary structure.jpg P18 Secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http ... taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01673 ... Rfam database. Family http rfam.sanger.ac.uk family RF01674 RF01674 Image P29 secondary structure.jpg P29 Secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01676 RF01676 Image P35 secondary structure.jpg P35 Secondary structure taken from the http rfam.sanger.ac.uk Rfam ...   more details



  1. Hfq binding sRNA

    Infobox rfam Name isrA Hfq binding RNA image RF01385.png width caption Predicted secondary structure of isrA Hfq binding RNA Symbol isrA AltSymbols Rfam RF01385 miRBase miRBase family RNA type gene , sRNA ... http rfam.sanger.ac.uk Rfam database Navbox name hidden title Gallery of secondary structure images ... RNA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01387 RF01387 ... Rfam database. Family http rfam.sanger.ac.uk family RF01388 RF01388 . Image RF01389.png isrF Hfq binding RNA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database ... secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01391 ... rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01392 RF01392 . Image RF01393.png isrJ Hfq binding RNA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam ... RNA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family ... rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01396 RF01396 . Image ... Rfam database. Family http rfam.sanger.ac.uk family RF01397 RF01397 . Image RF01398.png isrP Hfq binding RNA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01400 RF01400 ... Rfam database. Family http rfam.sanger.ac.uk family RF01401 RF01401 . Image RF01402.png ...   more details



  1. Listeria monocytogenes non-coding RNA

    Infobox rfam Name Listeria snRNA rli22 image RF01457.png width 200 caption Predicted secondary structure of Listeria snRNA rli22 Symbol rli22 AltSymbols Rfam RF01457 miRBase miRBase family RNA type gene ... on the genome sup a sup 3 flanking gene Characteristic Rfam rli22 31997 32107 110 lmo0028 lmo0029 ... rli39 1179807 1179993 187 lmo1149 lmo1150 sRNA Annotated as a cobalamin riboswitch in Rfam rli40 ... in Rfam lmo1190 rli57 transcript levelncreasedinintestinal lumen rli58 ? 1639974 ? rpsD lmo1597 ... non coding RNAs class wikitable ID Rfam ID Rfam SAM riboswitch S box leader SAM RF00162 PrfA ... recognition particle RNA SRP RF00169 References reflist External links http rfam.sanger.ac.uk Rfam database ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family ... rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01458 RF01458 . Image ... Rfam database. Family http rfam.sanger.ac.uk family RF01459 RF01459 . Image RF01460.png Listeria snRNA rliH Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http ... structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family ... the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01462 RF01462 . Image ... Rfam database. Family http rfam.sanger.ac.uk family RF01463 RF01463 . Image RF01464.png Listeria snRNA rliA Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family ... secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ... taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk family RF01466 RF01466 ... Rfam database. Family http rfam.sanger.ac.uk family RF01467 RF01467 . Image RF01468.png Listeria snRNA rli32 Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database ... Predicted secondary structure taken from the http rfam.sanger.ac.uk Rfam database. Family http rfam.sanger.ac.uk ...   more details



  1. CtRNA

    lowercase Infobox rfam Name ctRNA image RF00489.jpg width caption Predicted secondary structure and sequence conservation of ctRNA p42d Symbol ctRNA p42d AltSymbols Rfam RF00489 miRBase miRBase family RNA type Gene Antisense RNA antisense Tax domain Bacteria GO SO SO 0000644 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData In molecular biology ctRNA counter transcribed RNA is a plasmid encoded noncoding RNA that binds to the mRNA of repB and causes translation genetics translational inhibition. ref name Ven03 cite journal last Venkova Canova first T coauthors Patek M, Nesvera J year 2003 title Control of rep gene expression in plasmid pGA1 from Corynebacterium glutamicum journal J Bacteriol volume 185 pages 2402&ndash 2409 pmid 12670963 doi 10.1128 JB.185.8.2402 2409.2003 issue 8 pmc 152619 ref ctRNA is encoded by plasmids and functions in rolling circle replication to maintain a low copy number. In Corynebacterium Corynebacterium glutamicum , it achieves this by antisense pairing with the mRNA of RepB, a self replication replication initiation protein. ref name Ven03 In Enterococcus faecium the plasmid pJB01 contains three open reading frames, copA, repB, and repC. The pJB01 ctRNA is coded on the opposite strand from the copA repB intergenic region and partially overlaps an atypical ribosome binding site for repB. ref name pmid18511887 cite journal author Kim SW, Jeong IS, Jeong EJ, et al. title The terminal and internal hairpin loops of the ctRNA of plasmid pJB01 play critical roles in regulating copy number journal Mol. Cells volume 26 issue 1 pages 26 33 year 2008 month July pmid 18511887 doi url ref See also S element References references External links Rfam id RF00236 name ctRNA pGA1 Rfam id RF00489 name ctRNA p42d Rfam id RF00238 name ctRNA pND324 Rfam id RF00242 name ctRNA pT181 Category Antisense RNA molecular cell biology stub ...   more details



  1. Alpha operon ribosome binding site

    Infobox rfam Name Alpha operon ribosome binding site image RF00140.jpg width caption Predicted secondary structure and sequence conservation of Alpha RBS Symbol Alpha RBS AltSymbols Rfam RF00140 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Bacteria GO SO SO 0000233 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The alpha operon ribosome binding site in bacteria is surrounded by this complex pseudoknot ted RNA structure. Translation of the mRNA produces 4 ribosomal protein products, one of which S4 acts as a translational repressor by binding to the nested pseudoknot region. The mechanism of repression is thought to involve a conformational switch in the pseudoknot region and ribosome entrapment. ref cite journal last Schlax first PJ coauthors Xavier KA, Gluick TC, Draper DE year 2001 title Translational repression of the Escherichia coli alpha operon mRNA importance of an mRNA conformational switch and a ternary entrapment complex journal J Biol Chem volume 276 pages 38494&ndash 38501 pmid 11504736 doi 10.1074 jbc.M106934200 issue 42 ref References reflist 1 External links Rfam id RF00140 name Alpha operon ribosome binding site Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. Apolipoprotein B (apoB) 5' UTR cis-regulatory element

    Infobox rfam Name Apolipoprotein B apoB 5 UTR cis regulatory element image RF00463.jpg width caption Predicted secondary structure and sequence conservation of ApoB 5 CRE Symbol ApoB 5 CRE AltSymbols Rfam RF00463 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Eukaryota GO SO SO 0000204 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The apolipoprotein B apoB 5 UTR cis regulatory element is an cis regulatory element RNA element located in the 5 UTR of the human apoB mRNA . This structured element increases translation of the apoB protein or a reporter gene. ref cite journal last Pontrelli first L coauthors Sidiropoulos KG, Adeli K year 2004 title Translational control of apolipoprotein B mRNA regulation via cis elements in the 5 and 3 untranslated regions journal Biochemistry volume 43 pages 6734&ndash 6744 pmid 15157107 doi 10.1021 bi049887s issue 21 ref References reflist 1 External links Rfam id RF00463 name Apolipoprotein B apoB 5 UTR cis regulatory element Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. Bovine leukaemia virus RNA packaging signal

    Infobox rfam Name Bovine leukaemia virus RNA packaging signal image RF00192.jpg width caption Predicted secondary structure and sequence conservation of BLV package Symbol BLV package AltSymbols Rfam RF00192 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Eukaryota Virus es GO SO SO 0000233 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData This family represents the bovine leukaemia virus RNA capsid encapsidation packaging signal which is essential for efficient viral replication . ref cite journal last Mansky first LM coauthors Gajary LC year 2002 title The primary nucleotide sequence of the bovine leukemia virus RNA packaging signal can influence efficient RNA packaging and virus replication journal Virology volume 301 pages 272&ndash 280 pmid 12359429 doi 10.1006 viro.2002.1578 issue 2 ref See also Mason Pfizer monkey virus packaging signal References reflist 1 External links Rfam id RF00192 name Bovine leukaemia virus RNA packaging signal Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. C0299 RNA

    Infobox rfam Name C0299 RNA image RF00119.jpg width caption Predicted secondary structure and sequence conservation of C0299 Symbol C0299 AltSymbols Rfam RF00119 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0001263 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The C0299 RNA family consists of a group of Shigella flexneri and Escherichia coli RNA genes which are 78 bases in length and are found between the hlyE and umuD gene s. The function of this RNA is unknown. ref cite journal last Tjaden first B coauthors Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C year 2002 title Transcriptome analysis of Escherichia coli using high density oligonucleotide probe arrays journal Nucleic Acids Res volume 30 pages 3732&ndash 3738 pmid 12202758 doi 10.1093 nar gkf505 issue 17 pmc 137427 ref See also C0343 RNA C0465 RNA C0719 RNA References reflist 1 External links Rfam id RF00119 name C0299 RNA Category Non coding RNA molecular cell biology stub ...   more details



  1. C0465 RNA

    Infobox rfam Name C0465 RNA image RF00116.jpg width caption Predicted secondary structure and sequence conservation of C0465 Symbol C0465 AltSymbols Rfam RF00116 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0000655 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The C0465 RNA is a bacterial non coding RNA of 78 nucleotides in length that is found between the tar and cheW gene s in the genomes of Escherichia coli and Shigella flexneri . This ncRNA was originally identified in E.coli using microarray high density oligonucleotide probe arrays microarray ref name pmid12202758 cite journal author Tjaden B, Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C title Transcriptome analysis of Escherichia coli using high density oligonucleotide probe arrays journal Nucleic Acids Res. volume 30 issue 17 pages 3732 8 year 2002 pmid 12202758 doi 10.1093 nar gkf505 pmc 137427 ref . The function of this ncRNA is unknown. See also C0299 RNA C0343 RNA C0719 RNA References references External links Rfam id RF00116 name C0465 RNA DEFAULTSORT C0465 Rna Category Non coding RNA molecular cell biology stub ...   more details



  1. C0719 RNA

    Infobox rfam Name C0719 RNA image RF00117.jpg width caption Predicted secondary structure and sequence conservation of C0719 Symbol C0719 AltSymbols Rfam RF00117 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0000655 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The C0719 RNA is a bacterial non coding RNA of 222 nucleotides in length that is found between the yghK and glcB gene s in the genomes of Escherichia coli and Shigella flexneri . This non coding RNA was originally identified in E.coli using microarray high density oligonucleotide probe arrays microarray. ref name pmid12202758 cite journal author Tjaden B, Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C title Transcriptome analysis of Escherichia coli using high density oligonucleotide probe arrays journal Nucleic Acids Res. volume 30 issue 17 pages 3732 8 year 2002 pmid 12202758 doi 10.1093 nar gkf505 pmc 137427 ref The function of this ncRNA is unknown. See also C0299 RNA C0343 RNA C0465 RNA References references External links Rfam id RF00117 name C0719 RNA DEFAULTSORT C0719 Rna Category Non coding RNA molecular cell biology stub ...   more details



  1. Cardiovirus cis-acting replication element (CRE)

    Infobox rfam Name Cardiovirus cis acting replication element CRE image RF00453.jpg width caption Predicted secondary structure and sequence conservation of Cardiovirus CRE Symbol Cardiovirus CRE AltSymbols Rfam RF00453 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Virus es GO SO SO 0000233 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData This family represents a Cardiovirus cis acting replication element CRE which is located within the region encoding the capsid protein VP2 and is required for viral replication . ref cite journal last Lobert first PE coauthors Escriou N, Ruelle J, Michiels T year 1999 title A coding RNA sequence acts as a replication signal in cardioviruses journal Proc Natl Acad Sci USA volume 96 pages 11560&ndash 11565 pmid 10500216 doi 10.1073 pnas.96.20.11560 issue 20 pmc 18073 ref See also Citrus tristeza virus replication signal Coronavirus SL III cis acting replication element CRE Rubella virus 3 cis acting element References reflist 1 External links Rfam id RF00453 name Cardiovirus cis acting replication element CRE Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. Connexin-43 internal ribosome entry site (IRES)

    Infobox rfam Name Connexin 43 internal ribosome entry site IRES image RF00487.jpg width caption Predicted secondary structure and sequence conservation of IRES Cx43 Symbol IRES Cx43 AltSymbols Rfam RF00487 miRBase miRBase family RNA type Cis regulatory element Cis reg Internal ribosome entry site IRES Tax domain Eukaryota GO GO 0043022 SO SO 0000243 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The connexin 43 internal ribosome entry site IRES is an Cis regulatory element RNA element present in the Five prime untranslated region 5 UTR of the mRNA of connexin 43 and allows cap independent translation. The connexin 43 internal ribosome entry site IRES allows cap independent translation during conditions such as heat shock and stress. ref cite journal last Schiavi first A coauthors Hudder A, Werner R year 1999 title Connexin43 mRNA contains a functional internal ribosome entry site journal FEBS Lett volume 464 pages 118&ndash 122 pmid 10618489 doi 10.1016 S0014 5793 99 01699 3 issue 3 ref References reflist 1 External links Rfam id RF00487 name Connexin 43 internal ribosome entry site IRES Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. Hairy RNA localisation element (HLE)

    Infobox rfam Name Hairy RNA localisation element HLE image RF00437.jpg width caption Predicted secondary structure and sequence conservation of HLE Symbol HLE AltSymbols Rfam RF00437 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Eukaryota GO SO SO 0000233 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The hairy localisation element HLE is an Cis regulatory element RNA element found in the Three prime untranslated region 3 UTR of the hairy gene. HLE contains two stem loop s. HLE is essential for the mediation of apical localisation and the two stem loop structures act to allow the recognition of hairy mRNA by the localisation machinery. ref cite journal last Bullock first SL coauthors Zicha D, Ish Horowicz D year 2003 title The Drosophila hairy RNA localization signal modulates the kinetics of cytoplasmic mRNA transport journal EMBO J volume 22 pages 2484&ndash 2494 pmid 12743042 doi 10.1093 emboj cdg230 issue 10 pmc 155988 ref HLE is found in Drosophila species. References reflist 1 External links Rfam id RF00437 name Hairy RNA localisation element HLE Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. HgcF RNA

    Infobox rfam Name HgcF RNA image RF00058.jpg width caption Predicted secondary structure and sequence conservation of HgcF Symbol HgcF AltSymbols Rfam RF00058 miRBase miRBase family RNA type Gene Tax domain Archaea GO SO SO 0000655 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The HgcF RNA gene is a non coding RNA identified computationally and experimentally verified in AT rich hyperthermophiles. ref cite journal last Klein first RJ coauthors Misulovin Z, Eddy SR year 2002 title Noncoding RNA genes identified in AT rich hyperthermophiles journal Proc Natl Acad Sci USA volume 99 pages 7542&ndash 7547 pmid 12032319 doi 10.1073 pnas.112063799 issue 11 pmc 124278 ref The genes were named hgcA through hgcG high GC . The molecular function of HgcF is unknown. See also HgcC family RNA HgcE RNA HgcG RNA SscA RNA References reflist 1 External links Rfam id RF00058 name HgcF RNA Category Non coding RNA molecular cell biology stub ...   more details



  1. Insertion sequence IS1222 ribosomal frameshifting element

    Infobox rfam Name Insertion sequence IS1222 ribosomal frameshifting element image RF00383.jpg width caption Predicted secondary structure and sequence conservation of IS1222 FSE Symbol IS1222 FSE AltSymbols Rfam RF00383 miRBase miRBase family RNA type Cis regulatory element Cis reg Translational frameshift frameshift element Tax domain Bacteria GO SO SO 0000233 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The Insertion sequence IS1222 ribosomal frameshifting element is an cis regulatory element RNA element found in the insertion sequence IS222. The ribosome ribosomal Translational frameshift frameshifting element stimulates frameshifting which is known to be required for transposition . ref cite journal last Mejlhede first N coauthors Licznar P, Prere MF, Wills NM, Gesteland RF, Atkins JF, Fayet O year 2004 title 1 Frameshifting at a CGA AAG Hexanucleotide Site Is Required for Transposition of Insertion Sequence IS1222 journal J Bacteriol volume 186 pages 3274&ndash 3277 pmid 15126494 doi 10.1128 JB.186.10.3274 3277.2004 issue 10 pmc 400620 ref References reflist 1 External links Rfam id RF00383 name Insertion sequence IS1222 ribosomal frameshifting element Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. IS061 RNA

    Infobox rfam Name IS061 RNA image RF00115.jpg width caption Predicted secondary structure and sequence conservation of IS061 Symbol IS061 AltSymbols Rfam RF00115 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0001263 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The ISO61 RNA is a bacterial non coding RNA of 181 nucleotides in length that is found between the abgR and ydaL genes in Escherichia coli and Shigella flexneri . It was discovered using a computational screen of the E. coli genome . ref cite journal last Chen first S coauthors Lesnik EA, Hall TA, Sampath R, Griffey RH, Ecker DJ, Blyn LB year 2002 title A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome journal Biosystems volume 65 pages 157&ndash 177 pmid 12069726 doi 10.1016 S0303 2647 02 00013 8 issue 2 3 ref The function of this RNA is unknown. See also IS102 RNA IS128 RNA References reflist 1 External links Rfam id RF00115 name IS061 RNA Category Non coding RNA molecular cell biology stub ...   more details



  1. IS102 RNA

    Infobox rfam Name IS102 RNA image RF00124.jpg width caption Predicted secondary structure and sequence conservation of IS102 Symbol IS102 AltSymbols Rfam RF00124 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0000655 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The IS102 RNA is a non coding RNA that is found in bacteria such as Shigella flexneri and Escherichia coli . The RNA is 208 nucleotide s in length and found between the yeeP and flu genes . This RNA was identified in a computational screen of E. coli . ref cite journal last Tjaden first B coauthors Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C year 2002 title Transcriptome analysis of Escherichia coli using high density oligonucleotide probe arrays journal Nucleic Acids Res volume 30 pages 3732&ndash 3738 pmid 12202758 doi 10.1093 nar gkf505 issue 17 pmc 137427 ref The function of this RNA is unknown. See also IS061 RNA IS128 RNA References reflist 1 External links Rfam id RF00124 name IS102 RNA Category Non coding RNA molecular cell biology stub ...   more details



  1. Tymovirus/pomovirus tRNA-like 3' UTR element

    Infobox rfam Name Tymovirus Pomovirus tRNA like 3 UTR element image RF00233.jpg width caption Predicted secondary structure and sequence conservation of Tymo tRNA like Symbol Tymo tRNA like AltSymbols Rfam RF00233 miRBase miRBase family RNA type Cis regulatory element Cis reg Tax domain Virus es GO SO SO 0000205 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The tymoviruses pomovirusesfamily tRNA like 3 UTR element is an cis regulatory element RNA element found in the 3 UTR of some viruses. This element acts in conjunction with UPSK RNA and a 5 cap to enhance translation. ref cite journal last Matsuda first D coauthors Dreher TW year 2004 title The tRNA like structure of turnip yellow mosaic virus RNA is a 3 translational enhancer journal Virology volume 321 pages 36&ndash 46 pmid 15033563 doi 10.1016 j.virol.2003.10.023 issue 1 ref The secondary structure of this RNA element is a cloverleaf that resembles tRNA . References reflist 1 External links Rfam id RF00233 name Tymovirus Pomovirus tRNA like 3 UTR element Category Cis regulatory RNA elements molecular cell biology stub ...   more details



  1. IS128 RNA

    Infobox rfam Name IS128 RNA image RF00125.jpg width caption Predicted secondary structure and sequence conservation of IS128 Symbol IS128 AltSymbols Rfam RF00125 miRBase miRBase family RNA type Gene Bacterial small RNA sRNA Tax domain Bacteria GO SO SO 0001263 CAS number EntrezGene HGNCid OMIM PDB RefSeq Chromosome Arm Band LocusSupplementaryData The IS128 RNA is a non coding RNA found in bacteria such as Escherichia coli and Shigella flexneri . The RNA is 209 nucleotides in length. It is found between the sseA and sseB genes . The IS128 RNA was initially identified in a computational screen of the E. coli genome. ref cite journal last Tjaden first B coauthors Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C year 2002 title Transcriptome analysis of Escherichia coli using high density oligonucleotide probe arrays journal Nucleic Acids Res volume 30 pages 3732&ndash 3738 pmid 12202758 doi 10.1093 nar gkf505 issue 17 pmc 137427 ref The function of this RNA is unknown. See also IS061 RNA IS102 RNA References reflist 1 External links Rfam id RF00125 name IS128 RNA Category Non coding RNA molecular cell biology stub ...   more details




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