LOCUS NR_004053 3535 bp RNA linear PRI 07-MAY-2024
DEFINITION Homo sapiens SOX2 overlapping transcript (SOX2-OT), transcript
variant 4, long non-coding RNA.
ACCESSION NR_004053 NR_002810
VERSION NR_004053.3
KEYWORDS RefSeq.
SOURCE Homo sapiens (human)
ORGANISM Homo sapiens
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
Catarrhini; Hominidae; Homo.
REFERENCE 1 (bases 1 to 3535)
AUTHORS Lee,J., Kim,E.A., Kang,J., Chae,Y.S., Park,H.Y., Kang,B., Lee,S.J.,
Lee,I.H., Park,J.Y., Park,N.J. and Jung,J.H.
TITLE Long non-coding RNA SOX2OT in tamoxifen-resistant breast cancer
JOURNAL BMC Mol Cell Biol 25 (1), 12 (2024)
PUBMED 38649821
REMARK GeneRIF: Long non-coding RNA SOX2OT in tamoxifen-resistant breast
cancer.
Publication Status: Online-Only
REFERENCE 2 (bases 1 to 3535)
AUTHORS Xin,C., Wang,X., Li,X., Chen,Y., Wang,X., Ning,J., Yang,S. and
Wang,Z.
TITLE [LncRNA SOX2OT enhances 5-fluorouracil resistance of
cholangiocarcinoma cells by promoting autophagy via up-regulating
SIRT1 expression]
JOURNAL Nan Fang Yi Ke Da Xue Xue Bao 44 (1), 187-193 (2024)
PUBMED 38293991
REMARK GeneRIF: [LncRNA SOX2OT enhances 5-fluorouracil resistance of
cholangiocarcinoma cells by promoting autophagy via up-regulating
SIRT1 expression].
REFERENCE 3 (bases 1 to 3535)
AUTHORS Hong,J.H., Jin,E.H., Sung,J.K., Chang,I.A., Kang,H. and Lee,S.I.
TITLE Association of lncRNA SOX2OT rs9839776 polymorphism with gastric
cancer risk in Korean: Case-control study
JOURNAL Medicine (Baltimore) 102 (43), e35103 (2023)
PUBMED 37904476
REMARK GeneRIF: Association of lncRNA SOX2OT rs9839776 polymorphism with
gastric cancer risk in Korean: Case-control study.
REFERENCE 4 (bases 1 to 3535)
AUTHORS Qiao,M., Li,D., He,Y., Cui,Q., Li,X. and Chi,H.
TITLE Regulatory effect and mechanism of LncRNA SOX2OT in idiopathic
pulmonary fibrosis
JOURNAL Cell Mol Biol (Noisy-le-grand) 69 (7), 187-190 (2023)
PUBMED 37715386
REMARK GeneRIF: Regulatory effect and mechanism of LncRNA SOX2OT in
idiopathic pulmonary fibrosis.
Publication Status: Online-Only
REFERENCE 5 (bases 1 to 3535)
AUTHORS Fouani,Y., Gholipour,A., Oveisee,M., Shahryari,A., Saberi,H.,
Mowla,S.J. and Malakootian,M.
TITLE Distinct gene expression patterns of SOX2 and SOX2OT variants in
different types of brain tumours
JOURNAL J Genet 102 (2023)
PUBMED 37017197
REMARK GeneRIF: Distinct gene expression patterns of SOX2 and SOX2OT
variants in different types of brain tumours.
REFERENCE 6 (bases 1 to 3535)
AUTHORS Hou,Z., Zhao,W., Zhou,J., Shen,L., Zhan,P., Xu,C., Chang,C., Bi,H.,
Zou,J., Yao,X., Huang,R., Yu,L. and Yan,J.
TITLE A long noncoding RNA Sox2ot regulates lung cancer cell
proliferation and is a prognostic indicator of poor survival
JOURNAL Int J Biochem Cell Biol 53, 380-388 (2014)
PUBMED 24927902
REMARK GeneRIF: our data suggested that Sox2ot plays an important role in
regulating lung cancer cell proliferation, and may represent a
novel prognostic indicator for the disease.
REFERENCE 7 (bases 1 to 3535)
AUTHORS Askarian-Amiri,M.E., Seyfoddin,V., Smart,C.E., Wang,J., Kim,J.E.,
Hansji,H., Baguley,B.C., Finlay,G.J. and Leung,E.Y.
TITLE Emerging role of long non-coding RNA SOX2OT in SOX2 regulation in
breast cancer
JOURNAL PLoS One 9 (7), e102140 (2014)
PUBMED 25006803
REMARK GeneRIF: Results show that SOX2OT plays a key role in the induction
and/or maintenance of SOX2 expression in breast cancer.
Publication Status: Online-Only
REFERENCE 8 (bases 1 to 3535)
AUTHORS Shahryari,A., Rafiee,M.R., Fouani,Y., Oliae,N.A., Samaei,N.M.,
Shafiee,M., Semnani,S., Vasei,M. and Mowla,S.J.
TITLE Two novel splice variants of SOX2OT, SOX2OT-S1, and SOX2OT-S2 are
coupregulated with SOX2 and OCT4 in esophageal squamous cell
carcinoma
JOURNAL Stem Cells 32 (1), 126-134 (2014)
PUBMED 24105929
REMARK GeneRIF: Data suggest a part for SOX2OT spliced variants in tumor
initiation and/or progression as well as regulating pluripotent
state of stem cells.
REFERENCE 9 (bases 1 to 3535)
AUTHORS Amaral,P.P., Neyt,C., Wilkins,S.J., Askarian-Amiri,M.E.,
Sunkin,S.M., Perkins,A.C. and Mattick,J.S.
TITLE Complex architecture and regulated expression of the Sox2ot locus
during vertebrate development
JOURNAL RNA 15 (11), 2013-2027 (2009)
PUBMED 19767420
REFERENCE 10 (bases 1 to 3535)
AUTHORS Fantes,J., Ragge,N.K., Lynch,S.A., McGill,N.I., Collin,J.R.,
Howard-Peebles,P.N., Hayward,C., Vivian,A.J., Williamson,K., van
Heyningen,V. and FitzPatrick,D.R.
TITLE Mutations in SOX2 cause anophthalmia
JOURNAL Nat Genet 33 (4), 461-463 (2003)
PUBMED 12612584
COMMENT REVIEWED REFSEQ: This record has been curated by NCBI staff. The
reference sequence was derived from DA366949.1, JN711430.1,
AK022826.1 and AC117415.7.
On Feb 8, 2013 this sequence version replaced NR_004053.2.
Summary: This gene produces alternatively spliced long non-coding
RNAs. These RNAs were observed to be upregulated in tumor cells and
positively correlated to expression of the SRY-box 2 gene.
Overexpression of these transcripts may promote cell proliferation.
[provided by RefSeq, Dec 2017].
Transcript Variant: This variant (4) has an alternate exon in place
of the first four exons compared to variant 1.
Sequence Note: This RefSeq record was created from transcript and
genomic sequence data to make the sequence consistent with the
reference genome assembly. The genomic coordinates used for the
transcript record were based on transcript alignments.
Publication Note: This RefSeq record includes a subset of the
publications that are available for this gene. Please see the Gene
record to access additional publications.
##Evidence-Data-START##
Transcript exon combination :: AK022826.1, SRR1803612.270349.1
[ECO:0000332]
RNAseq introns :: single sample supports all introns
SAMEA2145743, SAMEA2157437
[ECO:0000348]
##Evidence-Data-END##
COMPLETENESS: complete on the 3' end.
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-29 DA366949.1 2-30
30-767 JN711430.1 1-738
768-1845 AK022826.1 556-1633
1846-3535 AC117415.7 66594-68283 c
FEATURES Location/Qualifiers
source 1..3535
/organism="Homo sapiens"
/mol_type="transcribed RNA"
/db_xref="taxon:9606"
/chromosome="3"
/map="3q26.33"
gene 1..3535
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/note="SOX2 overlapping transcript"
/db_xref="GeneID:347689"
/db_xref="HGNC:HGNC:20209"
/db_xref="MIM:616338"
ncRNA 1..3535
/ncRNA_class="lncRNA"
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/product="SOX2 overlapping transcript, transcript variant
4"
/db_xref="GeneID:347689"
/db_xref="HGNC:HGNC:20209"
/db_xref="MIM:616338"
exon 1..412
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/inference="alignment:Splign:2.1.0"
exon 413..481
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/inference="alignment:Splign:2.1.0"
exon 482..767
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/inference="alignment:Splign:2.1.0"
exon 768..875
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/inference="alignment:Splign:2.1.0"
exon 876..3535
/gene="SOX2-OT"
/gene_synonym="NCRNA00043; SOX2OT"
/inference="alignment:Splign:2.1.0"
ORIGIN
1 aaaaatgttg aatatcaaca atgggtttca gtgctgtatt gttgagtttt gtatgaacta
61 atctagcttc tctaaaaaaa aaaaaaaaaa aaaaaaaaag aaagaaaaga aagaaagaaa
121 agaaagaaag aaagaaaaaa aaagaaaaga aaaaaaagag aaccacagct ttggacaaaa
181 gtctatagcc agtgcatttg aaaactcccc ttgcaccagg gctgactgta gctgggggaa
241 gacattttac tcatttgctc tttcctttca tacagtcagc tggtccctct tctcaggtgt
301 agatcaccta ttataatttt acctaatttt gatactctga taaggaaagt cccaggactt
361 atcagctggg ataggcctca cttacaagac agctctgttc agtatttgga agaaagcctg
421 acaggtttct tcggaaaagt ggccatccat ggaatgaatg aaatgttctc tttctattcc
481 agggattgca gtggcaaagc taggctaggt cttggaggct ggtgtaaggc gatgtgggtg
541 aaggcaggag gctgatggaa agactggggg gaagaaaagc cgaaatggat tcacggtgcc
601 ttggatgaag gacgagaggg gaactgcaag ctccttcaac tggttctgtc cggtgagaag
661 tgatcaagct tgggctgaca agaggctcag ggagccctca cgttctttcg cttttttacc
721 tgccaatcaa actgctacaa gacaacaccc tgatctggca tggacatcgc gggtccaagc
781 ctgtagcccc aaatcggata atctctgcag ctgataacaa gcaaaagaga agccaggcaa
841 cagccatatt aaagaagaaa acaatcaact ctgagatcca acttagaaat aatgtttcat
901 tcaagataag gctcgtggct taggagattg tgacctggct tgcatcattc taagacttct
961 atcgtctgtt ttcaaaaccc aaggaggacc tccttttctg tgtgatagtt cctcatgctt
1021 tgccagccac tgggtcttta aggaagcttg ccaagagttc ccggctggga aggacagttc
1081 gagttcatca tagacaatga gctggcacca cagtttaagt gactcaccaa cctggttgcc
1141 cacttcaaaa tgtcaagaac cacactatct aattgaaaga actgtgtttt agcaaagtgt
1201 aattggatcg cctggcaaga tcatctcaaa ctatgtctct gaccttgcct ttcagtggct
1261 attttgagca caagaggaga aaggaaatga ttcctgaatt atatcttgtt tttaaaaatt
1321 aagattaatt aatacttggt tttatgttca ttccattgta ggaacttagt gattattaca
1381 aaacagtcaa aataggtcat agcaaaatga acgtttaaga ttaggttaaa acattcctct
1441 gaaattttag tattcacttt tgaagtgtca attactatat ttctgtaatt tctcattttt
1501 ttcttggctt agagtcaaga tgaaaaatga tatttgaatc aaagacattg ttttgttata
1561 tagccactcc tttctaaaat gcaaatccac cctcccctca ccaatgcttt attctttgtg
1621 cgcgcacaca cacacacaca cacacacaca cacacacaca cacacagaca tacacagaac
1681 cagcacccaa atggtagagg aggtccttcc aagacttcta ggacctggat catgtaagca
1741 gtagatgaga aaatgaagta agagatatag agtaataaca ataaaagtca atgatttcat
1801 tttacaaaaa agtcattgtg tagtactcag atatttttaa gagcaagtat tattatgact
1861 aaagtatatt atacttctaa attattatga ttctcatcta atttcaagcc acacataggc
1921 gccatttgaa agcattttgt gttacaacct atcaacaaaa atcaactaat agttttataa
1981 cgtgcatagg tttaccccat ggggaattaa aatttttatc tgcaagtatt tctgttgttg
2041 tgagacttta ggacaagaca acatttggtg ttaacataga agaatattct atggcttttt
2101 tagctttaaa gttcattact ctaaaataaa gtacacgtgg tatttttttc ttcctagtgt
2161 tctcttatta tatgtagagt attttcggtt gttgttttta acgtatacat tatttttatt
2221 aagtcatttc ataaaagata agatatatac taatagaccc ttggttttct cctaatttaa
2281 ttatttcaag tcaagcaaaa ttgggcaatt ttctttcagg aaaaaaaaaa tattgagcat
2341 gattttgagg taaaactgat tatttacagc atcttttctc taataggcta acatttatga
2401 tggatcttat ttcaaagttg attattctca aagaaaagtg gagatattag aatttccgag
2461 taaattgcat tgttttaaaa agtactttaa tgcattgttc acattgttgc cagctattga
2521 ccaaaaaaga gaagaagaaa aaagaaataa aaaaagcagt atctgctcca aacgtcaagt
2581 tttgcagttt gaaagacttg tacattataa ttgttttttt cttttttgga aagcagtagt
2641 aattaatacc aaaggcatag acaatttagg gccataacct cccttccccc ctctccacct
2701 tttttttttt tttttttttt ttttaacttt aaccatgata ggcatctctg caaggtaggt
2761 tttaacatat ttttttccta atttttttcc ctccattcag taagaaggat aagcttttag
2821 agtacccagt caccgtggta actgccaaaa aaattctcct gaagtttgaa gaggtcagct
2881 agcagggtca acaaccctgg cctctctctg agctcggtct agcatgcccc agcctgcggt
2941 tggagtgtca ggccagatct gaccctggga ggtggaccat tctggctctg atataaattt
3001 ttcgagtcag ttcatggcct ggactctcca ggtggcctcc aaaatcgatt ttgaccccct
3061 gaccctgtct cacggaggca tagcatccac cctaagtaag gatttagcca ggaatgacag
3121 ctttccactg agtgttattg gggacagtat aaacagtttg gaaagcaagt aaggaggtgt
3181 gagggctagc aatcattaaa agcacattaa aaaacaattt ttaaaaatct ttattagaga
3241 aagttgtaaa tgcatatctg ttacagaatt cctgtgattt gtagagtttt ctagtcagtt
3301 ttgaatataa ataggtcaca tatctttatc tttttgcata ctttgttaca aatatgcaaa
3361 taagataggc atacttgcta caaaataggt acagcaggaa tgtaatatgt tcagaaaagg
3421 caaactggtt attaaaacac attaacaggt aaggagtttc taatatttta aatactaaaa
3481 ttttacatgt gtattttgaa gtttttaaaa tggaaaaata aagaaccttt aaaaa
//