Difference between revisions of "Lnc-SRA1-1:1"
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==Annotated Information== | ==Annotated Information== | ||
+ | ===Name=== | ||
+ | SRA: Steroid receptor RNA Activator | ||
+ | |||
+ | ===Characteristics=== | ||
+ | Bifunctional gene, active as an RNA and encodes a conserved protein SRAP (reviewed in [http://www.ncbi.nlm.nih.gov/pubmed/17710122 Leygue (2007)]). SRA has a large number of isoforms, most of which share a central core region. Only some isoforms are also able to encode the SRAP protein, and differential splicing may be one mechanism of generating coding and noncoding isoforms of SRA [http://www.ncbi.nlm.nih.gov/pubmed/16848684 (Hube (2006))] (reviewed in [http://www.ncbi.nlm.nih.gov/pubmed/17710122 Leygue (2007)]). A number of functional motifs, with predicted secondary structures, are required for SRA RNA function [http://www.ncbi.nlm.nih.gov/pubmed/12444263 (Lanz (2002))]. | ||
+ | |||
+ | ===Function=== | ||
+ | Forms ribonucleoprotein complexes with a number of nuclear receptors (including many steroid hormone receptors) generally acting to stimulate transcriptional activation ([http://www.ncbi.nlm.nih.gov/pubmed/10199399 Lanz (1999)], [http://www.ncbi.nlm.nih.gov/pubmed/17710122 Leygue (2007)]). Interacts either directly or through a complex with a number of other co-activator and repressor proteins, such as SRC-1, Sharp, SLIRP and p68 and p72 RNA helicases. SRA has been suggested to act as a scaffold for these complexes (reviewed in [http://www.ncbi.nlm.nih.gov/pubmed/17710122 Leygue (2007)]). Transgenic expression of SRA in vivo caused hyperplasia and morphological abnormalities in steroid hormone responsive tissues. Hyperplasia was accompanied by higher apoptosis however and expression of SRA did not lead to tumourigenesis [http://www.ncbi.nlm.nih.gov/pubmed/14517287 (Lanz (2003))]. Associated with cardiomyopathy in humans, a role in heart development was validated in zebrafish but it's unclear if SRAP or SRA or both is responsible [http://www.ncbi.nlm.nih.gov/pubmed/19064678 (Friedrichs (2009))]. SRA activity is regulated by pseudouridylation ([http://www.ncbi.nlm.nih.gov/pubmed/15327771 Zhao (2004)], [http://www.ncbi.nlm.nih.gov/pubmed/17170069 Zhao (2007)]). | ||
+ | |||
+ | ===Expression=== | ||
+ | Expressed in a wide range of tissues, some isoforms appear to have tissue specific expression ([http://www.ncbi.nlm.nih.gov/pubmed/10199399 Lanz (1999)], [http://www.ncbi.nlm.nih.gov/pubmed/14517287 Lanz (2003)]). Up-regulated in tumours of steroid hormone responsive tissues ie: breast, uterus and ovary compared to matched normal tissue ([http://www.ncbi.nlm.nih.gov/pubmed/11103781 Murphy (2000)], [http://www.ncbi.nlm.nih.gov/pubmed/14517287 Lanz (2003)]). Found in the nucleus and the cytoplasm ([http://www.ncbi.nlm.nih.gov/pubmed/14517287 Lanz (2003)], [http://www.ncbi.nlm.nih.gov/pubmed/17170069 Zhao (2007)]). | ||
+ | |||
+ | ===Conservation=== | ||
+ | SRA ncRNA conserved in mammals [http://www.ncbi.nlm.nih.gov/pubmed/17710122 (Leygue (2007))]. SRAP Protein is conserved in chordata [http://www.ncbi.nlm.nih.gov/pubmed/15147866 (Chooniedass-Kothari (2004))]. | ||
+ | |||
+ | ===Misc=== | ||
+ | Some isoforms of SRA encode a conserved protein product SRAP, which is also expressed in normal tissues and breast cancer ([http://www.ncbi.nlm.nih.gov/pubmed/12565891 Emberley (2003)], [http://www.ncbi.nlm.nih.gov/pubmed/15147866 Chooniedass-Kothari (2004)], [http://www.ncbi.nlm.nih.gov/pubmed/16152589 Chooniedass-Kothari (2006)]). Studies show SRAP can also regulate the activity of nuclear receptors and bind to promoter regions regulated by nuclear receptors, suggesting functional similarities between SRA RNA and SRAP ([http://www.ncbi.nlm.nih.gov/pubmed/20398657 Chooniedass-Kothari (2010)], [http://www.ncbi.nlm.nih.gov/pubmed/20153324 Chooniedass-Kothari (2010)]). [http://www.ncbi.nlm.nih.gov/pubmed/17710122 Leygue (2007)] provides a useful review of the literature. | ||
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===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
Please input transcriptomic nomeclature information here. | Please input transcriptomic nomeclature information here. | ||
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===Regulation=== | ===Regulation=== | ||
Please input regulation information here. | Please input regulation information here. | ||
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===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
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[[Category:Intergenic]] | [[Category:Intergenic]] | ||
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Revision as of 01:23, 11 October 2014
Please input one-sentence summary here.
Contents
Annotated Information
Name
SRA: Steroid receptor RNA Activator
Characteristics
Bifunctional gene, active as an RNA and encodes a conserved protein SRAP (reviewed in Leygue (2007)). SRA has a large number of isoforms, most of which share a central core region. Only some isoforms are also able to encode the SRAP protein, and differential splicing may be one mechanism of generating coding and noncoding isoforms of SRA (Hube (2006)) (reviewed in Leygue (2007)). A number of functional motifs, with predicted secondary structures, are required for SRA RNA function (Lanz (2002)).
Function
Forms ribonucleoprotein complexes with a number of nuclear receptors (including many steroid hormone receptors) generally acting to stimulate transcriptional activation (Lanz (1999), Leygue (2007)). Interacts either directly or through a complex with a number of other co-activator and repressor proteins, such as SRC-1, Sharp, SLIRP and p68 and p72 RNA helicases. SRA has been suggested to act as a scaffold for these complexes (reviewed in Leygue (2007)). Transgenic expression of SRA in vivo caused hyperplasia and morphological abnormalities in steroid hormone responsive tissues. Hyperplasia was accompanied by higher apoptosis however and expression of SRA did not lead to tumourigenesis (Lanz (2003)). Associated with cardiomyopathy in humans, a role in heart development was validated in zebrafish but it's unclear if SRAP or SRA or both is responsible (Friedrichs (2009)). SRA activity is regulated by pseudouridylation (Zhao (2004), Zhao (2007)).
Expression
Expressed in a wide range of tissues, some isoforms appear to have tissue specific expression (Lanz (1999), Lanz (2003)). Up-regulated in tumours of steroid hormone responsive tissues ie: breast, uterus and ovary compared to matched normal tissue (Murphy (2000), Lanz (2003)). Found in the nucleus and the cytoplasm (Lanz (2003), Zhao (2007)).
Conservation
SRA ncRNA conserved in mammals (Leygue (2007)). SRAP Protein is conserved in chordata (Chooniedass-Kothari (2004)).
Misc
Some isoforms of SRA encode a conserved protein product SRAP, which is also expressed in normal tissues and breast cancer (Emberley (2003), Chooniedass-Kothari (2004), Chooniedass-Kothari (2006)). Studies show SRAP can also regulate the activity of nuclear receptors and bind to promoter regions regulated by nuclear receptors, suggesting functional similarities between SRA RNA and SRAP (Chooniedass-Kothari (2010), Chooniedass-Kothari (2010)). Leygue (2007) provides a useful review of the literature.
Transcriptomic Nomeclature
Please input transcriptomic nomeclature information here.
Regulation
Please input regulation information here.
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
You can also add sub-section(s) at will.
Labs working on this lncRNA
Please input related labs here.
References
Please input cited references here.
Basic Information
Transcript ID |
lnc-SRA1-1:1 |
Source |
LNCipedia2.1 |
Same with |
, |
Classification |
intergenic |
Length |
1965 nt |
Genomic location |
chr5-:139929651..139937678 |
Exon number |
, |
Exons |
, |
Genome context |
|
Sequence |
000001 GCAGGCACTA AGCTGGGCAC TGGGAATGTA ATAAAATAGT CAAGGTCCCA CCTTCTAAGA CTGTCCGACA GGGAAACGAA 000080 000081 CAAGAGTCAA ATAAGGCAGA AGATGTGATG TAATACACCT ACGAAATCTC AGAGGGTTGT AGGGTCGTGG GAGCTCAAGT 000160 000161 GAGACACTTA ACCTGGCCTG AGACATTCCA GAAGGCCTCC TGAAGAACTG ACATCTGAAC TGAGAACTGA AGGAAGATGA 000240 000241 GTACTAGTGA GGCTACCGGA CGTGAATGTG GAGATTGTGC AGGGCAATGC AAGAGGAGGC TGTAGAAGTC AACCTGGCTA 000320 000321 GATCACAGCG GGGTGTATGT GGGGCAGGAG CTTCTTTGTT TGAATTTGCT CCTGAGAGGA TGAGGCCTCC TAGAGCACTG 000400 000401 GCTCCTGGAC AGCAACCTCC TTTGGTGCCT TGTGACCAGG GCCCTGATGG TTCATTAGAT GGAGCCTTCG AGTCTTAGGG 000480 000481 AGTTGCCGCA GGGTCCCCAC AGCGGCTCCC GACGGTTGTG AACCAGCATC CATCCTCCAC GGATTCCGGC AACCCGCCTG 000560 000561 GCCCTGGACG TGTCTCAACT GGCCCGCGTG AGGGGCCGCC CCGGAAATGA CGCGCTGCCC CGCTGGCCAA GCGGAAGTGG 000640 000641 AGATGGCGGA GCTGTACGTG AAGCCGGGCA ACAAGGAACG CGGCTGGAAC GACCCGCCGC AGTTCTCATA CGGGCTGCAG 000720 000721 ACCCAGGCCG GCGGACCCAG GCGCTCGCTG CTTACCAAGA GGGTCGCCGC ACCCCAGGAT GGATCCCCCA GAGTCCCCGC 000800 000801 ATCAGAGACT TCTCCTGGGC CTCCCCCAAT GGGGCCTCCA CCTCCTTCAA GTAAGGCTCC CAGGTCCCCA CCTGTGGGGA 000880 000881 GTGGTCCTGC CTCTGGCGTG GAGCCCACAA GTTTCCCAGT CGAGTCTGAG GCTGTGATGG AGGATGTGCT GAGACCTTTG 000960 000961 GAACAGGCAT TGGAAGACTG CCGTGGCCAC ACAAGGAAGC AGGTATGTGA TGACATCAGC CGACGCCTGG CACTGCTGCA 001040 001041 GGAACAGTGG GCTGGAGGAA AGTTGTCAAT ACCTGTAAAG AAGAGAATGG CTCTACTGGT GCAAGAGCTT TCAAGCCACC 001120 001121 GGTGGGACGC AGCAGATGAC ATCCACCGCT CCCTCATGGT TGACCATGTG ACTGAGGTCA GTCAGTGGAT GGTAGGAGTT 001200 001201 AAAAGATTAA TTGCAGAAAA GAGGAGTCTG TTTTCAGAGG AGGCAGCCAA TGAAGAGAAA TCTGCAGCCA CAGCTGAGAA 001280 001281 GAACCATACC ATACCAGGCT TCCAGCAGGC TTCATAATCC TCGGTTCCCC AGACTCACCG GACACCATCT CCTATGCCTT 001360 001361 GGAGACCTTC TGTCACTTGG CTCCCTTCTT ACCACCACCA AGACTGTCCC ACTGGGCCTG ACCCACCTAT GAGGGAAGAA 001440 001441 GTCCCACCTG GGCCAGAGGG AGTTCATGTG TTACTCATAA CATGCATTTC AATAAAAACA TCTCTGCGGT GGGC |