Difference between revisions of "Lnc-EVX1-12:1"
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==Annotated Information==
===Transcriptomic Nomeclature===
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==Annotated Information== | ==Annotated Information== | ||
| + | ===Name=== | ||
| + | HOTAIRM1: HOX antisense intergenic RNA myeloid 1 | ||
| + | |||
| + | ===Characteristics=== | ||
| + | Bidirectional transcript with HoxA1. Located between HOXA1 and HOXA2 genes ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/19144990 Zhang (2009)]). Identified transcript is 483 nt [http://www.ncbi.nlm.nih.gov/pubmed/19144990 (Zhang (2009))] but other splice isoforms are also likely to be expressed. | ||
| + | |||
| + | ===Function=== | ||
| + | HOTAIRM plays a role in the regulation of gene expression during RA-induced myeloid differentiation [http://www.ncbi.nlm.nih.gov/pubmed/19144990 (Zhang (2009))]. Knock-down of HOTAIRM prevented induction of HOXA1 and HOXA4 expression during myeloid differentiation as well as the induction of myeloid differentiation genes CD11b and CD18 [http://www.ncbi.nlm.nih.gov/pubmed/19144990 (Zhang (2009))]. Found to interact with a number of of chromatin binding proteins/complexes in mouse embryonic stem cells including PRC1, PRC2 and CBX1 [http://www.ncbi.nlm.nih.gov/pubmed/21874018 (Guttman (2011))]. | ||
| + | |||
| + | ===Expression=== | ||
| + | Expressed in the myeloid lineage [http://www.ncbi.nlm.nih.gov/pubmed/19144990 (Zhang (2009))]. Has also been identified as showing a similar expression pattern to HoxA1 and A2 with expression in thymus, muscle, colon, lung, kidney, spleen etc ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]). Induced by retinoic acid (RA) ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/19144990 Zhang (2009)]). Shows collinear regulation of expression like HOX PTC genes [http://www.ncbi.nlm.nih.gov/pubmed/17185360 (Sessa (2007))]. Expressed in mouse embryonic stem cells (ESCs) [http://www.ncbi.nlm.nih.gov/pubmed/21874018 (Guttman (2011))] | ||
| + | |||
| + | ===Conservation=== | ||
| + | equence quite highly conserved in mammals, with transcripts also detected in mouse and rat [http://www.ncbi.nlm.nih.gov/pubmed/19144990 (Zhang (2009))]. | ||
| + | |||
| + | ===Misc=== | ||
| + | Please input misc information here. | ||
| + | |||
===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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==References== | ==References== | ||
| − | + | [http://www.lncrnadb.org/HOTAIRM1/ Annotation originally sourced from lncRNAdb.] | |
{{basic| | {{basic| | ||
| Line 42: | Line 54: | ||
sequence = <dnaseq>AAAAGTTTGCCGGCTTCCGCAGTGATGGATCACCGTTTTAGTGGCATTTAAATCCCCGGCGCTCCGCCGTCTAGGTGACGCGCAGTCGCCCCCCCAGGCAGCCTAGGCGGCGGCAGCTGCTGCGGCGACTGCAAAGGCCGATTTGGAGTGCTGGAGCGAAGAAGAGCAAAAGCTGCGTTCTGCGCGCGCCCGACTCCGCTGCCCGCCCCGCCAGGCCTCCGGGAGGTGGGGGCTGGGAGGCGTCCCCCGCTCCCGCCCCCTCCCCACCGTTCAATGAAAGATGAACTGGCGAGAGGTCTGTTTTGCCTGAACCCATCAACAGCTGGGAGATTAATCAACCACACTGAAAATGTGGAGGGATTTATGGGGGAGGGGGTTGAAATGTGGGTGTTTGAAACAAAAGTGTATAAACAAATGAATTGTTGATAACTTAGTTATTGACCTGGAGACTGGTAGCTTATTAAAGAAACTCCGTGTTACTCA</dnaseq>| | sequence = <dnaseq>AAAAGTTTGCCGGCTTCCGCAGTGATGGATCACCGTTTTAGTGGCATTTAAATCCCCGGCGCTCCGCCGTCTAGGTGACGCGCAGTCGCCCCCCCAGGCAGCCTAGGCGGCGGCAGCTGCTGCGGCGACTGCAAAGGCCGATTTGGAGTGCTGGAGCGAAGAAGAGCAAAAGCTGCGTTCTGCGCGCGCCCGACTCCGCTGCCCGCCCCGCCAGGCCTCCGGGAGGTGGGGGCTGGGAGGCGTCCCCCGCTCCCGCCCCCTCCCCACCGTTCAATGAAAGATGAACTGGCGAGAGGTCTGTTTTGCCTGAACCCATCAACAGCTGGGAGATTAATCAACCACACTGAAAATGTGGAGGGATTTATGGGGGAGGGGGTTGAAATGTGGGTGTTTGAAACAAAAGTGTATAAACAAATGAATTGTTGATAACTTAGTTATTGACCTGGAGACTGGTAGCTTATTAAAGAAACTCCGTGTTACTCA</dnaseq>| | ||
}} | }} | ||
| − | [[Category:Intergenic]] | + | [[Category:Intergenic]][[Category:Transcripts]] |
Latest revision as of 02:49, 26 August 2015
Please input one-sentence summary here.
Contents
Annotated Information
Name
HOTAIRM1: HOX antisense intergenic RNA myeloid 1
Characteristics
Bidirectional transcript with HoxA1. Located between HOXA1 and HOXA2 genes (Sessa (2007), Sasaki (2007), Zhang (2009)). Identified transcript is 483 nt (Zhang (2009)) but other splice isoforms are also likely to be expressed.
Function
HOTAIRM plays a role in the regulation of gene expression during RA-induced myeloid differentiation (Zhang (2009)). Knock-down of HOTAIRM prevented induction of HOXA1 and HOXA4 expression during myeloid differentiation as well as the induction of myeloid differentiation genes CD11b and CD18 (Zhang (2009)). Found to interact with a number of of chromatin binding proteins/complexes in mouse embryonic stem cells including PRC1, PRC2 and CBX1 (Guttman (2011)).
Expression
Expressed in the myeloid lineage (Zhang (2009)). Has also been identified as showing a similar expression pattern to HoxA1 and A2 with expression in thymus, muscle, colon, lung, kidney, spleen etc (Sessa (2007), Sasaki (2007)). Induced by retinoic acid (RA) (Sessa (2007), Zhang (2009)). Shows collinear regulation of expression like HOX PTC genes (Sessa (2007)). Expressed in mouse embryonic stem cells (ESCs) (Guttman (2011))
Conservation
equence quite highly conserved in mammals, with transcripts also detected in mouse and rat (Zhang (2009)).
Misc
Please input misc information here.
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
Annotation originally sourced from lncRNAdb.
Basic Information
| Transcript ID |
lnc-EVX1-12:1 |
| Source |
LNCipedia2.1 |
| Same with |
, |
| Classification |
intergenic |
| Length |
483 nt |
| Genomic location |
chr7+:27135742..27139584 |
| Exon number |
, |
| Exons |
, |
| Genome context |
|
| Sequence |
000001 AAAAGTTTGC CGGCTTCCGC AGTGATGGAT CACCGTTTTA GTGGCATTTA AATCCCCGGC GCTCCGCCGT CTAGGTGACG 000080
000081 CGCAGTCGCC CCCCCAGGCA GCCTAGGCGG CGGCAGCTGC TGCGGCGACT GCAAAGGCCG ATTTGGAGTG CTGGAGCGAA 000160 000161 GAAGAGCAAA AGCTGCGTTC TGCGCGCGCC CGACTCCGCT GCCCGCCCCG CCAGGCCTCC GGGAGGTGGG GGCTGGGAGG 000240 000241 CGTCCCCCGC TCCCGCCCCC TCCCCACCGT TCAATGAAAG ATGAACTGGC GAGAGGTCTG TTTTGCCTGA ACCCATCAAC 000320 000321 AGCTGGGAGA TTAATCAACC ACACTGAAAA TGTGGAGGGA TTTATGGGGG AGGGGGTTGA AATGTGGGTG TTTGAAACAA 000400 000401 AAGTGTATAA ACAAATGAAT TGTTGATAAC TTAGTTATTG ACCTGGAGAC TGGTAGCTTA TTAAAGAAAC TCCGTGTTAC 000480 000481 TCA |
