SOX1-OT

Annotated Information

Name

Approved symbol: SOX1-OT

Approved name: SOX1 overlapping transcript

HGNC ID: HGNC:42733

Previous names: long intergenic non-protein coding RNA 403

Previous symbols: LINC00403

RefSeq ID: NR_120392

LncBook ID: HSALNT0207103

Characteristics

The 5′RACE analysis revealed two main TSS for SOX1-OT located in close genomic proximity to the SOX1 gene, annotated as a long intergenic non-coding mRNA-like transcript with no inferred coding potential, could be detected in human cells, has a complex structure including several unannotated exons, different transcript variants, and at least two potential TSS, a total of 10 exons for human SOX1-OT, 5 of which (exon2, 3, 6–8) are novel and previously unknown, report 9 new SOX1-OT transcript variants (V3–V11) not previously reported in the literature((Ahmad A 2017)).

Expression

SOX1-OT was found to be highly expressed in differentiated neural stem cells across different time points of differentiation, and its expression correlated with SOX1 gene expression, different SOX1-OT transcript variants were differentially detected during the course of neural differentiation((Ahmad A 2017)).

Function

Co-expression of SOX1-OT and SOX1 during neural differentiation might indicate a co-regulatory role in pathways regulating neural differentiation((Ahmad A 2017)).

Disease

cancer

Labs working on this lncRNA

Wolfson STEM Centre, Division of Cancer & Stem Cells, School of Medicine, University of Nottingham, Nottingham, UK((Ahmad A 2017)).

Division of Graduate Entry Medicine & Health, School of Medicine, University of Nottingham, Derby, UK((Ahmad A 2017)).

sequence

>NR_120392.1 Homo sapiens SOX1 overlapping transcript (SOX1-OT), transcript variant 1, long non-coding RNA

000001 AAATAAACCA CTCCATTGCA GAAAAGCGTG GGCAGGCAGG ACTTCACTCC ACTGCAGCCC CGGGAAGTCG AAATAAACAT 000080
000081 TGAGATGGCT TGGCATCTTC TTCCGAGCAA GCGCAGCTCT CAGGCCGGGC CTGAGCCTGC AGCCTGTGTG CCCTCCATCA 000160
000161 TCAGGGCCCC CTCTCAGGAC AGGCTACACC GAGGGTGGGA CGGCGGACTT CCAGGGACAC TTCCAAGTCG TGCCCATGCA 000240
000241 GATACCTCAG TATACACTGC CCACAGTTAA GAAACCACGA CCTGAGACAT TGTTTTGAAG AGGTGAAAAT GCCTCCACTC 000320
000321 AAGTGGCCCA GGAGCGTGAT CCAGGAAGAC GAACACACAG AACCATCTTC TGCATGGTTT GAAAATTCAG TGGAAACTAG 000400
000401 GACTCCAAGC TGCTGTCCCC TCTCTGCCGC ATCTGAGGCT GGGAAAACTT CCTAGGAGAA GGCAAGAGAA AGCCACCAGA 000480
000481 CCAGAGCCGA GGACTAAACT TTAAGGTCGA AGACGGCAGA GGGGCAGGTT CTCCCCTGCA CACCCCAAGG CCTCTCCTGC 000560
000561 ACCCGCGAGG CCTTCCTTGA GCGCCCAGGC CCCCGAAATG CCTGCCCTCC TTCTGACAAA AGGAGGGGGT AGGATGTGAA 000640
000641 GGGGTAGTGC AACCAACAAT GTTTTTGTAA ACACAACAAC AGGGAAATAC ATGGAGGAAA TCTA

>NR_120394.1 Homo sapiens SOX1 overlapping transcript (SOX1-OT), transcript variant 2, long non-coding RNA

000001 GCGAGTTTAA ATTCACTGAA AGAGGCCCAG ATACCAAGTC GAGTGAATTT CATAGACATC ATCTTCTGTT TTAATGATCG 000080
000081 CGGCAGTGAT CGTTTCTGAA GTCATACCCT TTAGGGTGAA CTCACAACAA TGCATGTCAG AGAGGCTGCG CGCCCTAAAG 000160
000161 CAAAACAGTT AAAACATCAG GCCACGCTCC TCAAACTGCA GGATTGCAAG CAGCTCACAA ACTTCCAGTC CCCACCCCAA 000240
000241 GGACTCCAAG CTGCTGTCCC CTCTCTGCCG CATCTGAGGC TGGGAAAACT TCCTAGGAGA AGGCAAGAGA AAGCCACCAG 000320
000321 ACCAGAGCCG AGGACTAAAC TTTAAGGTCG AAGACGGCAG AGGGGCAGGT TCTCCCCTGC ACACCCCAAG GCCTCTCCTG 000400
000401 CACCCGCGAG GCCTTCCTTG AGCGCCCAGG CCCCCGAAAT GCCTGCCCTC CTTCTGACAA AAGGAGGGGG TAGGATGTGA 000480
000481 AGGGGTAGTG CAACCAACAA TGTTTTTGTA AACACAACAA CAGGGAAATA CATGGAGGAA ATCTA