Difference between revisions of "NONHSAT122926"

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==Annotated Information==
 
==Annotated Information==
===Transcriptomic Nomeclature===
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===Name===
Please input transcriptomic nomeclature information here.
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ST7OT
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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.
 +
 +
===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.
 
===Expression===
 
Please input expression information here.
 
  
 
===Allelic Information and Variation===
 
===Allelic Information and Variation===
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==References==
 
==References==
Please input cited references here.
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[http://www.lncrnadb.org/st7ot/ Annotation originally sourced from lncRNAdb.]
  
 
{{basic|
 
{{basic|
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sequence = <dnaseq>GTGAAGACAGGCAGAGACTGGGGTAATGCAGCTACAAGGGAATGTCAGAGATTGCTAGCAAACACCAGAAGCTGGAAGAGGCAATTAAGGATTGCTCCCTAGAGCTTTTAGAGGGAGGACGGCTCTGCCACCTGCCTTGTTCTTGGACTCCTAGCCTCCAGAATTAGGTCACCTGTTGGGCAATATCACCATAGACTGAATACAGAAGCAGATATTAGCCTCCAGCCTCCTGCTCATCTGGACACTAGAGAGAGTGGATATTCTAAAAGCAGAAATCTTGACACTTAAGCCAAAAAGCCCTCCCATTCAGAAGGATGTATGGATTTTTCATACTTGCATCTGCGGGACGCAGATGGTCCGAGTCACAAGTAAAGAATGTCTGGTGGTCTTGGGCAGAGAGATTCATGTCATAAGGAATCACTAACACCTTGACTCCAGATCATGGCTTGAAACACACTGGAATGGGATTTTGCATAAAAGAAGAAAGCTCAGGAATGATAAATTTACACACCATGGATCTAGAAGGGAGTCTATAACCCCAGAATCACCATTATTTTGGGTGATCCATATGGCTATCAATTAAAGTGCTACCTGAGTGCTGTTCAACTTCTTGAGATGGATGAAAAAGGAATGAAAGGAGACATAGCAATCTTCAACTCCGCTCCTTTACTTTTGAATAAGAGGTGATGGAAGGCAAGGTCAGAGAGATCTGGGTTCAAATCTCATGATTTAACTGCTATATAACCTTGGCCAAATTATTTAAACTTTGTGTCTGTTTTTACTTAGCAATATAAAGACACTGGTCATACCCACCACTCAGAATTTCAATCAGAACTAAATGAAATAATATATGCAAAGTGCTTAATATAGTACACCTGGCATGGAGTGGTAACTCAATAAATAGATCTTTTGTTATAAAAAAAAAAAAAAAAAAAAAAAA</dnaseq>|
 
sequence = <dnaseq>GTGAAGACAGGCAGAGACTGGGGTAATGCAGCTACAAGGGAATGTCAGAGATTGCTAGCAAACACCAGAAGCTGGAAGAGGCAATTAAGGATTGCTCCCTAGAGCTTTTAGAGGGAGGACGGCTCTGCCACCTGCCTTGTTCTTGGACTCCTAGCCTCCAGAATTAGGTCACCTGTTGGGCAATATCACCATAGACTGAATACAGAAGCAGATATTAGCCTCCAGCCTCCTGCTCATCTGGACACTAGAGAGAGTGGATATTCTAAAAGCAGAAATCTTGACACTTAAGCCAAAAAGCCCTCCCATTCAGAAGGATGTATGGATTTTTCATACTTGCATCTGCGGGACGCAGATGGTCCGAGTCACAAGTAAAGAATGTCTGGTGGTCTTGGGCAGAGAGATTCATGTCATAAGGAATCACTAACACCTTGACTCCAGATCATGGCTTGAAACACACTGGAATGGGATTTTGCATAAAAGAAGAAAGCTCAGGAATGATAAATTTACACACCATGGATCTAGAAGGGAGTCTATAACCCCAGAATCACCATTATTTTGGGTGATCCATATGGCTATCAATTAAAGTGCTACCTGAGTGCTGTTCAACTTCTTGAGATGGATGAAAAAGGAATGAAAGGAGACATAGCAATCTTCAACTCCGCTCCTTTACTTTTGAATAAGAGGTGATGGAAGGCAAGGTCAGAGAGATCTGGGTTCAAATCTCATGATTTAACTGCTATATAACCTTGGCCAAATTATTTAAACTTTGTGTCTGTTTTTACTTAGCAATATAAAGACACTGGTCATACCCACCACTCAGAATTTCAATCAGAACTAAATGAAATAATATATGCAAAGTGCTTAATATAGTACACCTGGCATGGAGTGGTAACTCAATAAATAGATCTTTTGTTATAAAAAAAAAAAAAAAAAAAAAAAA</dnaseq>|
 
}}
 
}}
[[Category:Antisense]]
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[[Category:Antisense]][[Category:NONHSAG048617]][[Category:Transcripts]]
 
 
{{lncrnadb|
 
tID = NONHSAT122926|
 
ltID = ST7OT|
 
ann = <tab class=wikitable sep=tab head=top>
 
Section Description
 
ID ST7OT
 
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.
 
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
 
</tab>|
 
}}
 

Latest revision as of 06:00, 26 August 2015

Please input one-sentence summary here.

Annotated Information

Name

ST7OT

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

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID

NONHSAT122926

Source

NONCODE4.0

Same with

,

Classification

antisense

Length

940 nt

Genomic location

chr7-:116752346..116785614

Exon number

6

Exons

116752346..116752721,116757955..116758037,116768351..116768397,116770582..116770741,116784221..116784307,116785450..116785614

Genome context

Sequence
000001 GTGAAGACAG GCAGAGACTG GGGTAATGCA GCTACAAGGG AATGTCAGAG ATTGCTAGCA AACACCAGAA GCTGGAAGAG 000080
000081 GCAATTAAGG ATTGCTCCCT AGAGCTTTTA GAGGGAGGAC GGCTCTGCCA CCTGCCTTGT TCTTGGACTC CTAGCCTCCA 000160
000161 GAATTAGGTC ACCTGTTGGG CAATATCACC ATAGACTGAA TACAGAAGCA GATATTAGCC TCCAGCCTCC TGCTCATCTG 000240
000241 GACACTAGAG AGAGTGGATA TTCTAAAAGC AGAAATCTTG ACACTTAAGC CAAAAAGCCC TCCCATTCAG AAGGATGTAT 000320
000321 GGATTTTTCA TACTTGCATC TGCGGGACGC AGATGGTCCG AGTCACAAGT AAAGAATGTC TGGTGGTCTT GGGCAGAGAG 000400
000401 ATTCATGTCA TAAGGAATCA CTAACACCTT GACTCCAGAT CATGGCTTGA AACACACTGG AATGGGATTT TGCATAAAAG 000480
000481 AAGAAAGCTC AGGAATGATA AATTTACACA CCATGGATCT AGAAGGGAGT CTATAACCCC AGAATCACCA TTATTTTGGG 000560
000561 TGATCCATAT GGCTATCAAT TAAAGTGCTA CCTGAGTGCT GTTCAACTTC TTGAGATGGA TGAAAAAGGA ATGAAAGGAG 000640
000641 ACATAGCAAT CTTCAACTCC GCTCCTTTAC TTTTGAATAA GAGGTGATGG AAGGCAAGGT CAGAGAGATC TGGGTTCAAA 000720
000721 TCTCATGATT TAACTGCTAT ATAACCTTGG CCAAATTATT TAAACTTTGT GTCTGTTTTT ACTTAGCAAT ATAAAGACAC 000800
000801 TGGTCATACC CACCACTCAG AATTTCAATC AGAACTAAAT GAAATAATAT ATGCAAAGTG CTTAATATAG TACACCTGGC 000880
000881 ATGGAGTGGT AACTCAATAA ATAGATCTTT TGTTATAAAA AAAAAAAAAA AAAAAAAAAA
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