LINC00470

Annotated Information

Name

Approved symbol: LINC00470

Approved name: long intergenic non-protein coding RNA 470

HGNC ID: HGNC:1225

Previous names: chromosome 18 open reading frame 2

Previous symbols: C18orf2

RefSeq ID: NR_023925

Ensembl ID: ENSG00000132204

LncBook ID: HSALNT0246856

Characteristics

Functional domains of 7SK RNA((Diribarne 2009))

LINC00470 (also known as C18orf2) is a long non-coding RNA located in chromosome band 18p11.32 between RP11-16P11 and RP11-732L14, Its alternative splicing of seven exons generates four transcripts^[1].

Expression

LINC00470 expression levels in astrocytoma were significantly higher than those in normal brain tissues, high expressed in GBM^[1].

Regulation

Please input regulation here.

Function

Model of hLarp7 recognition of the 7SK 3′end and mechanism of assembly of core 7SK RNP((Eichhorn 2018))

7SK snRNA functions in transcriptional regulation by interacting with PTEF-B complex ((Nguyen 2001)) ((Yang 2001)), BAF chromatin-remodeling complex ((Flynn 2016)), or hnRNP R ((Briese 2018)). Consistently, it has been found highly enriched in isolated chromatin fractions, which may be related to its role in transcriptional regulation ((Mondal 2010)). In addition to its critical role for controlling transcription, 7SK snRNA is also involved in alternative splicing ((Barboric 2009)) and the localization of protein in nucleolus ((He 2007)). Therefore, 7SK snRNA has a variety of functions in the nuclear, playing important roles in cell growth and differentiation ((Nguyen 2001)) ((Yang 2001)), axon maintenance ((Briese 2018)) and vertebrate development ((Barboric 2009)).

7SK snRNA controls RNAP II activity by inhibiting P-TEFb elongation factor, which is a cdk-cyclin kinase that functions as both a general and an HIV-1 Tat-specific transcription factor ((Nguyen 2001)) ((Yang 2001)), with an impact on cell growth and differentiation. Specifically, 7SK snRNA functions as the central scaffold that coordinates protein-protein interactions and, by inhibiting P-TEFb kinase-mediated CTD phosphorylation, regulates RNAP II elongation ((Nguyen 2001)).

At an early stage of the HIV transcription cycle, elongation is prevented as P-TEFb is recruited to the HIV-1 promoter in a catalytically inactive state bound to the 7SK snRNP and also the Tat trans-activator of transcription protein. The inhibitory 7SK snRNP may be displaced by the nascent TAR HIV RNA that also binds Tat protein, activating P-TEFb kinase and transcriptional elongation ((D'Orso 2010)). Displacement of 7SK may also be performed by cellular RNAs, as indicated by the 3'-untranslated region (~300-nt) of HIC mRNA, which forms complexes with P-TEFb and is necessary and sufficient for stimulation of P-TEFb-dependent transcription of the HIV promoter ((Young 2007)).

7SK snRNA inhibits enhancer transcription by modulating nucleosome position. 7SK physically interacts with the BAF chromatin-remodeling complex, recruits BAF to enhancers and inhibits enhancer transcription by modulating chromatin structure ((Flynn 2016)).

In axons, 7SK snRNA interacts with hnRNP R to regulate its function in axon maintenance ((Briese 2018)).

7SK snRNP (composed of 7SK snRNA, Hexim1, Larp7/Pip7S, and the P-TEFb subunits CycT1 and Cdk9) is not only critical for controlling transcription, but also for regulating alternative splicing coupled to transcription elongation ((Barboric 2009)). 7SK snRNP disintegration promotes inclusion of an alternative exon via the increased occupancy of P-TEFb, Ser2-phosphorylated (Ser2-P) RNAPII, and the splicing factor SF2/ASF at the minigene ((Barboric 2009)).

7SK snRNA also inhibits APOBEC3C deaminase activity and sequesters it to the nucleolus, suggesting broader role for 7SK RNA in regulating key nuclear functions ((He 2007)).

Disease

colon adenocarcinoma ^[1]

Evolution

Please input evolution information here.

Labs working on this lncRNA

Hunan Provincial Tumor Hospital and the Affiliated Tumor Hospital of Xiangya Medical School, Central South University, Changsha, 410006, Hunan, China.
Cancer Research Institute, School of Basic Medical Science, Central South University, Changsha, 410078, Hunan, China.

References

↑ ^1.0 ^1.1 ^1.2 Liu C, Zhang Y, She X, et al. A cytoplasmic long noncoding RNA LINC00470 as a new AKT activator to mediate glioblastoma cell autophagy[J]. J Hematol Oncol, 2018, 11: 77.

Sequence

>gi|193083199|ref|NR_023925.1| Homo sapiens long intergenic non-protein coding RNA 470 (LINC00470), transcript variant 1, long non-coding RNA

000001  AATGCCTTAA AGAAAGGACT GATCTCCCCT GAAGAAGAGA GAATTCTGCC TCTAGATTGC TTACAATTTG AACTGGAACA  000080
000081  TCAGCTGTTC TCTAGGTCTT AAGTCTGCTG CTCTAACCTA CAAATTTTGG ACATGCCAAT CTCCACAGTC ACATGGGCCA  000160
000161  ATTCCTTAGT TTCTCTGGAG AATCCTGACT AATGTATGCA ATGTCTTTAT TTCATCCTCA TTCTTAAAGG ATATTTTCAT  000240
000241  CAGCAACACC ACACCCTCCT GATCACCATA GCTTTATGAT CTGAGCTTTC ATCTGGTATC ATTTCCTTTC CGTCTGAAGA  000320
000321  ACTTGCTTTC CTTGCAACAA CAAGAAACAA ATTTATTAGC TAACCTAACC ACTAATGACG CAAGAGACAA TTCTAAGGAC  000400
000401  TTTCAAAACA GCAAAGTAGG AGCAGCTGCT ACCTCTAGGG ATGAGGGAGA AACTCAAAAA TGCATACAAA AACCATTGCA  000480
000481  TGAAAAGTGA CTGGATTTGT ACATAGCGTC AGGAGATGTG CGTAGTGTCA AAGTATCTCA TCACACATTA CTTGATAATT  000560
000561  ACAAATGAGA AAAATGAACC TTCACAGTGG CAAGACTTGA CTTCTACCTC TTTCAAAAAG ATGCAATTGT CCAATTATTG  000640
000641  GTGAAATTGT CATTTCATGC TATTGGCTAT TTGAAATTCC TCCTCTAATT TCAGAATAAA TCACTGAAAT TGACATCGGC  000720
000721  CAGTCTGAAT TTCAAGAAAT TACCTGCTGA AGACAAGAGG GATCTCTTCT TCAGATTTGC AGTCTGGGGA AGACACAGCC  000800
000801  TCTACTGTAC TTTAGAACCT GAGATATGGT GGTGGAGGGA GCCCTGGGTC GAGTGGTAAG ATTCACCCTT AGGTTAGTAT  000880
000881  TGACGTAAGG TGACGAGGAG CTGTAGACAA AAGATTGTAA CCATAAGAAC TTCATAGTTT TTGTATTTTC ACCGAGCTTA  000960
000961  TATTTGGTGT GTTTTTTGTC TTTTCTTTAT GATTATCAAT AAAATGCTTG AAAGGAGATG AGGTTGGGGA ATAATTTTTG  001040
001041  GGAATACCAC AAAAGACACT TTTGTGATGG AAATCCTTAA AAAGACACAA TCCATTACCT CATTGGGTTC AAAAGGCAAT  001120
001121  TGTGAACTAC TGTGGAGTTT GGAAAGAAGC AATGAGGTAA TCAAGGATAC TGTTGACAAT CTAGCTTATC CTATGGATGG  001200
001201  AAGGAAATTG AAACTAATGG AGGCGAGGCT GGTAAAACAA TAGGGTTTGA GACAATTCTG TGGCATTAGA AATGAAAGAG  001280
001281  GAAGGTGAAT CCGGGAGACG GAGCTTGCAG TGAGCTGAGA TCGCGCCACT GCACTCCAGC CTGGGCGACA GAGCGAGACT  001360
001361  CCATCTCAAA AAAAAAAAAA AAGAAAGAAA GAAAAGAAAG AGGAAGTAAT AATCTGTGAA ATTTTTCCTT AGGAACTTAT  001440
001441  TGGCAATTTA AAAATGAATT TGTTAAGCCA TGCTGGTTCT GACCCAAAAG CCATTCCCCA GCCTTCCTCA CTCCCCTCTT  001520
001521  TCACTACTGG CAGAGATTGT CTCTCATTTT ACAAGCTGAA AATGCCAGAT GCTTGCTTTT ACAGTCTTCC TTACACCCAG  001600
001601  AGCATGTGCA TATGTTTAAA CGGTCAAGAA GAAGTCATAA CATGGGTGTC TGGGAGAGCT TTTATCCCAC AAAAACAACA  001680
001681  CTTCACTCAA AAAACAAACC AAACAAAGAA AAATTCTCCT TCCTGCCATT GGATGTGAGG CTCAGACCTC TAGTAACCAT  001760
001761  TTTGTGACCA CAAAGCAACA AGCCTGAGGA AAAGTCCTAC ACGCTGAGCA ACAGGCAGAA ATATTGCCAT CGCTGAGTTG  001840
001841  CAGAAACAAA TCTAGAGATG TTTTGCTTCT GTAATTATTT TTTATGGGAG ATTACAAGTG GGTTTACTGT TCACTTTTCA  001920
001921  AATCTTATTT CTCTATGATG TTTAGCTTGG GTAAATTTTA CCTTAAATCC AC

[ref1-1] 1.0 ^1.1 ^1.2 Liu C, Zhang Y, She X, et al. A cytoplasmic long noncoding RNA LINC00470 as a new AKT activator to mediate glioblastoma cell autophagy[J]. J Hematol Oncol, 2018, 11: 77.

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