Difference between revisions of "NONHSAT122932"

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==Annotated Information==
 
==Annotated Information==
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===Transcriptomic Nomeclature===
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===Name===
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Please input transcriptomic nomeclature information here.
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ST7OT
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Characteristics
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===Characteristics===
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Four noncoding RNAs from the RAY1/ST7 gene locus. Complex gene locus with a large number of coding and noncoding isoforms. ST7OT1 & 2 are antisense to ST7. ST7OT3 & 4 are on the sense strand. ST7OT1 - ~2kb unspliced antisense transcript that initiates in intron 1 of ST7, covers the first exon and terminates in the ST7 promoter region. Polyadenylated. Nb: it also overlaps exon 1 of ST7OT4. ST7OT2 - Spliced antisense transcripts. Multiple isoforms that share either some 5' or some 3' exons. Isoforms are between 900-1300 bp, with 4-6 exons and polyadenlyated. ST7OT3 - Spliced ~1kb transcript. Begins in intron 10 of ST7, shares exons 11-13 and sometimes 14 & 15 with ST7 plus has a number of unique exons. Some exons may also act as a alternative 3' end for ST7. ST7OT4 - Multiple spliced transcripts within the long first intron of ST7. However, Refseq ST7OT4 transcript may be protein coding. Transcription begins just ~200bp downstream from the end of first ST7 exon.
  
 
===Function===
 
===Function===
 
Please input function information here.
 
Please input function information here.
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===Expression===
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ST7OT1 - abundantly expressed in testis, also expressed in cerebellum, skeletal muscle, uterus, cerebellum, spinal cord, fetal brain, and prostate. ST7OT2 - testis, fetal brain, cerebellum, mammary gland, fibroblasts. ST7OT3 - expression only detected in cerebellum. ST7OT4 - no expression detected.
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===Conservation===
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ST7OT1 - some conserved sequence with mouse, most of this is where ST7OT1 overlaps the first exon of ST7 however. ST7OT2 - 3' end of some isoforms shows some conservation with mouse. ST7OT3 - some conserved sequence, most of this is shared exons with ST7 though. ST7OT4 - sequence not conserved with mouse.
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===Misc===
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ST7OT1 - NCBI Gene ID: 93653. ST7OT2 - NCBI Gene ID: 93654. ST7OT3 - NCBI Gene ID: 93655. ST7OT4 - NCBI Gene ID: 338069
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===Transcriptomic Nomeclature===
 +
Please input transcriptomic nomeclature information here.
  
 
===Regulation===
 
===Regulation===
 
Please input regulation information here.
 
Please input regulation information here.
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===Expression===
 
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===Allelic Information and Variation===
 
===Allelic Information and Variation===
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[[Category:Sense]]
 
[[Category:Sense]]
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{{lncrnadb|
 
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tID = NONHSAT122932|
 
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ltID = ST7OT|
 
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ann = <tab class=wikitable sep=tab head=top>
 
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Section Description
 
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ID ST7OT
 
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Characteristics Four noncoding RNAs from the RAY1/ST7 gene locus. Complex gene locus with a large number of coding and noncoding isoforms. ST7OT1 & 2 are antisense to ST7. ST7OT3 & 4 are on the sense strand. ST7OT1 - ~2kb unspliced antisense transcript that initiates in intron 1 of ST7, covers the first exon and terminates in the ST7 promoter region. Polyadenylated. Nb: it also overlaps exon 1 of ST7OT4. ST7OT2 - Spliced antisense transcripts. Multiple isoforms that share either some 5' or some 3' exons. Isoforms are between 900-1300 bp, with 4-6 exons and polyadenlyated. ST7OT3 - Spliced ~1kb transcript. Begins in intron 10 of ST7, shares exons 11-13 and sometimes 14 & 15 with ST7 plus has a number of unique exons. Some exons may also act as a alternative 3' end for ST7. ST7OT4 - Multiple spliced transcripts within the long first intron of ST7. However, Refseq ST7OT4 transcript may be protein coding. Transcription begins just ~200bp downstream from the end of first ST7 exon.
 
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Expression ST7OT1 - abundantly expressed in testis, also expressed in cerebellum, skeletal muscle, uterus, cerebellum, spinal cord, fetal brain, and prostate. ST7OT2 - testis, fetal brain, cerebellum, mammary gland, fibroblasts. ST7OT3 - expression only detected in cerebellum. ST7OT4 - no expression detected.
 
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Conservation ST7OT1 - some conserved sequence with mouse, most of this is where ST7OT1 overlaps the first exon of ST7 however. ST7OT2 - 3' end of some isoforms shows some conservation with mouse. ST7OT3 - some conserved sequence, most of this is shared exons with ST7 though. ST7OT4 - sequence not conserved with mouse.
 
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Misc ST7OT1 - NCBI Gene ID: 93653. ST7OT2 - NCBI Gene ID: 93654. ST7OT3 - NCBI Gene ID: 93655. ST7OT4 - NCBI Gene ID: 338069
 
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</tab>|
 
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}}
 

Revision as of 02:31, 11 October 2014

Please input one-sentence summary here.

Annotated Information

Name

ST7OT Characteristics

Characteristics

Four noncoding RNAs from the RAY1/ST7 gene locus. Complex gene locus with a large number of coding and noncoding isoforms. ST7OT1 & 2 are antisense to ST7. ST7OT3 & 4 are on the sense strand. ST7OT1 - ~2kb unspliced antisense transcript that initiates in intron 1 of ST7, covers the first exon and terminates in the ST7 promoter region. Polyadenylated. Nb: it also overlaps exon 1 of ST7OT4. ST7OT2 - Spliced antisense transcripts. Multiple isoforms that share either some 5' or some 3' exons. Isoforms are between 900-1300 bp, with 4-6 exons and polyadenlyated. ST7OT3 - Spliced ~1kb transcript. Begins in intron 10 of ST7, shares exons 11-13 and sometimes 14 & 15 with ST7 plus has a number of unique exons. Some exons may also act as a alternative 3' end for ST7. ST7OT4 - Multiple spliced transcripts within the long first intron of ST7. However, Refseq ST7OT4 transcript may be protein coding. Transcription begins just ~200bp downstream from the end of first ST7 exon.

Function

Please input function information here.

Expression

ST7OT1 - abundantly expressed in testis, also expressed in cerebellum, skeletal muscle, uterus, cerebellum, spinal cord, fetal brain, and prostate. ST7OT2 - testis, fetal brain, cerebellum, mammary gland, fibroblasts. ST7OT3 - expression only detected in cerebellum. ST7OT4 - no expression detected.

Conservation

ST7OT1 - some conserved sequence with mouse, most of this is where ST7OT1 overlaps the first exon of ST7 however. ST7OT2 - 3' end of some isoforms shows some conservation with mouse. ST7OT3 - some conserved sequence, most of this is shared exons with ST7 though. ST7OT4 - sequence not conserved with mouse.

Misc

ST7OT1 - NCBI Gene ID: 93653. ST7OT2 - NCBI Gene ID: 93654. ST7OT3 - NCBI Gene ID: 93655. ST7OT4 - NCBI Gene ID: 338069

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

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You can also add sub-section(s) at will.

Labs working on this lncRNA

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References

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Basic Information

Transcript ID

NONHSAT122932

Source

NONCODE4.0

Same with

,

Classification

sense

Length

1052 nt

Genomic location

chr7+:116822735..116849991

Exon number

9

Exons

116822735..116822799,116824179..116824253,116829375..116829447,116830187..116830322,116830888..116830990,116831689..116831815,116838374..116838589,116839125..116839198,116849841..116849991

Genome context

Sequence
000001 TGGTATTCAG AGACGTAGAG TGGCACAGCT CCTCAGACTG CACGTTTTCC CTGAGCTCTC TACTGGAAAA CATTTCTATA 000080
000081 AAACATAAGA TGGCAAAGAG GTGGAAGAAA AATTAATGCC AGCAGTTCAG CTTTGACTAA ATATAAGCTT ACCAAAGTCA 000160
000161 GCAACAATAT GCTACACAGC TGCTTTGCTC AAAGCAAGAG CTGTCTCTGA CAAATCGCCA GTACCTACTG CAACATCTTT 000240
000241 TCTCCCTACA CAGCGACTCC AGCTTGGGAG GGCAGGGCCA GGGTTGTCAC AGCTTCCCCT GTGGTGTCTG CCTGCCAAGC 000320
000321 ACAGCTCTGG AGTTAGCCCT GGGTGTGAGA TTCTCTCCTG AGGCTGCATC TCGGCGGGGG CTGAGCACAG CAGAGATGAA 000400
000401 TGCAGTAGAG GCCATTCATA GAGCTGTGGA ATTCAATCCT CATGTGCCAA AATATCTACA TGCTGTATTA CGTAATTATC 000480
000481 ATCTTCTCTG AGGGAGGAAA AAAAGTAGCT GAGAGCCACT TTCAGTCCCG CTATTAAGTA CATTTTGGCC TCTAAGAAAC 000560
000561 TTCGTGTGGT TCACCTCAGG CTAGGTGGAA ATAGAGGCTG CCTAGAAACA TGCATTAACA GGTGCTTCTT GGGCCACCCT 000640
000641 AGCCTGAAGA AGGACAACCA GAGAGTATAA CAGTGGCACC TCAATGCCTT GGCCTTGAGG ACCCTCAGTG TCCCTTCAGG 000720
000721 CCTCCAGATT TGAGGGGAGG CTCTAGCATG TTCTGGCTGC AGCTATTGTC TTCAGGGATT CTGCAGCTTG TAGCTCGTTG 000800
000801 GGGTACTTCT ACCAATTGGA GCTGGGCTGT TGGAGTCATC TCCACTGCCT ACCACCAGGA CAAGCAGAGA AGTTACCTAC 000880
000881 TAGAAATGAA AAGCTTAATC CTACCCCCAG AACATATCCT GAAGAGAGGA GACAGTGAAG CAATAGCATA TGCATTCTTT 000960
000961 CATCTTGCAC ACTGGAAGAG AGTGGAAGGG GCTTTGAATC TTTTGCATTG TACGTGGGAA GGCACTTTTC GAAAAAAAAA 001040
001041 AAAAAAAAAA AA
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