PINCR
Contents
Annotated Information
Name
PINCR:p53-induced noncoding RNA
Characteristics
PINCR is a noncoding RNA ; highly enriched in the nucleus , similar to the nuclear-retained lncRNA MALAT1 (Hutchinson et al., 2007); the 5’and 3’ends of PINCR match the annotated transcript based on analysis of our RNA-seq data from HCT116 cells (Li et al., unpublished); analysis of the length of the PINCR transcript by RT-PCR reveals two closely migrating bands that match the expected size of the amplicon (~1.8 kb); PINCR promoter including the p53RE, mature PINCR transcript and the transcription start site are quite conserved among primates but poorly conserved between human and mouse.[1]
Cellular Localization
Xp11.3
Function
PINCR plays a role in p53-dependent G1 arrest and it has a prosurvival function in response to DNA damage. PINCR loss results in hypersensitivity to 5-FU and decreases tumor growth. PINCR regulates the induction of a subset of p53 targets after DNA damage. RNA pulldowns and mass spectrometry identifies Matrin 3 as a PINCR interacting protein that mediates the effect of PINCR. Matrin 3 associates with enhancers within insulated neighborhoods of PINCR targets. PINCR associates with the enhancer regions of select PINCR targets via Matrin 3[1]
Regulation
PINCR is a direct target of p53.[1]
Diseases
colorectal cancer [1]
Expression
PINCR is expressed at ~13–26 molecules per HCT116 cell after DNA damage and less than one molecule per cell without DNA damage based on comparison of the FPKM of PINCR with the lncRNA NORAD, known to be expressed at 500–1000 molecules per HCT116 cell (Lee et al., 2016). As an alternative approach, qRT-PCR using in vitro transcribed PINCR RNA showed that PINCR is expressed at ~27 molecules per HCT116 cell after DNA damage. [1]
Sequence
>NR_110387.1 Homo sapiens p53-induced noncoding RNA (PINCR), long non-coding RNA
000081 GCTCTCCTCA CCTTTCAATG TGTCCGTATG CCTAATTTTT CCTGGTCCTG TGACAAGAAC CTGATTTTAG CTGAACTAAG 000160
000161 GAGCGAAAGA TCCTGGATCA TTTTGGTGAC CCATACTGGT ACATGAGGAA AGCTCCTATT CCAGATTCTC AGAGTATAGA 000240
000241 TTCTGACTGG ATTACCCTGG TCCTTGAAGT ATACCTAGGA GATGGAATAA CATTGTATAA GCATCCACGT TGTCATTAAG 000320
000321 AGGAAAGAGT TTCCATTAAA ACAGCAGGTC ACAAAACCCT CCTGTGAGAG GAACCCTCTG TGGAAGAACA GAATATGTCA 000400
000401 CCCCAAAATA TGAAGAATTG TTGAGCTGAA GATGATTAAG AAGAAGCGGA TGCAGGAAAG CTCTCTGCTC TCCCTCTATT 000480
000481 TGCTTAAAAG CAGGATAAAC ACTTACAAAG ACTAAAGACG CCACAATCAA GAACTCAGAA GGGTAGAAGA AAAAGATAGT 000560
000561 TTCCCTTCCC TACACAGGTG TTGATCCCTT CATAAATATT ATGCATGCTA AGCCCTATCT CAAGGTCTAC ATCCAGGAGA 000640
000641 ACCCAACCTG CAACATTAAG TTACTGACTG TGCAAGAACC CTTTGATCAC GTACCTTACA GACCAAGATA AGTGAGGATG 000720
000721 CCCATGTATA ACCTGCTGTC TTTCTGGTCT CTTATGTTTT TGTACCAGAA AGGGACAACT TTTTGGGTAA CCATAGGTCT 000800
000801 CTAGTATATC TGTGATTACA ATAAAGATTT TTGATATACC AAAACTGATG AACCAAAATT CCACTGAAAT AGCGAGTAAA 000880
000881 TGGAGTTCTT TTATCCTTTG CAGTATACCA GGGTGAACTT TTTACATGAT TTCTTGCTCC AAAGGGAGAA GTGTTATGAC 000960
000961 AAAGTACATT TAAGGACCCT AACTGATCAC AGAAAAAATA TTAATGGCAT TGGGAAAAAA ATGCAGACTA ATGAATCCAC 001040
001041 TACTAAATTT TATCTATCTT GTAGCTCTAA AATTGCACTG TTTAGAATAC ACTATGGTAG CCACTAGACA TATGGCTACT 001120
001121 TGAACTTGAA TTGGTTAAAA TCAAAATTAA GAATTTAATT TCTCACTCAC ATTAGCCACA TTTCAAGTGC TCAACAGACA 001200
001201 CATGTGGCTA GTGTCTACCA TATTGGACAG CATAGATTTA AAGCACATTT CCATCATTGC AACACTGCAA TATGGAGGAT 001280
001281 GTATCCTCAA TACATTGATA TTGCCCCCTC AAAATTCATA ACCCCTAGAT ATCTTATCTC TGTATGTGAG GATAGTGTAT 001360
001361 TAACTTGCAC CTGGACTGAG ATAGATAAAT GCTTATCTCC AGAGATGTCT GAAAGTCTGG TACTGACCCT TGTCTAAGAT 001440
001441 AAGGATGGAA TGTGCTGGTT AATGATTTAT ACTGTGCTAT ACAAAGTCCA AAATTCCTTT GGAGGTATCC TCTGCTGGCT 001520
001521 TGTCTACATT GTTTAAGGAT GGATAGGTTG ATGGTTTGCA CCTGCTTTAA TCATTTACAC ATTCTGATTT TATTTGTGAT 001600
001601 CAGTGGAGGA TAAAACCTTC AATAAACTTG TGTCTTAGCT TCCTTGATAT TAAGATATCT TGCACATATC TTAGATTTTT 001680
001681 ATAATCTGAA TGCAAAGCAC ATCCTTTGCA ATTGAGAAAG GACTCTGTGA GCTGCTCCTG GATATGTGAA ACCCCTCAGT 001760
001761 GACTGACCGT ATTTTCTTTC TTCTGCTGTA CTTGCCCTTA TTAAAGCCTT ACATGTGAAG TAAGTCCTTT CAATTGTCTG 001840
001841 ACTCCGGGTG ATTGTTATAC CCTTTGATAT AGTTTGGATA TTTGTGCCTT CCAAATCTCA TGTTGAAATG CGATCCCCTA 001920
001921 TGTTGGAGGT GGAGCCTAGT AGGAGGTGTT AGGGTCACGG GAATGGATCC CTGATGAATG GCTTGGTACA CAGTAATGAG 002000
002001 TGAGTTTGTG CTTTATTAGT TACTGTGAGA TTTACTTGGT AAAAAGAGCC TGGCAACTCC TCCCTCTCCC TTGCTCCCTC 002080
002081 TCTTGCCATG TGACATGCTT GCTCCAGCTG CACCTTTTGC CACAATTGTA AGCTTTGTGA GTCCCTCAAC AGAAGCTGAG 002160
002161 CAAATGCTGG CACCATGCTT CTTGTACAGC CTACAGAACT GTGAACCAAA TAAAACTTTT ATTTTTAT
Labs working on this lncRNA
- Regulatory RNAs and Cancer Section, Genetics Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, United States.
References
- ↑ 1.0 1.1 1.2 1.3 1.4 Chaudhary R, Gryder B, Woods WS, Subramanian M, Jones MF, Li XL, Jenkins LM, Shabalina SA, Mo M, Dasso M, Yang Y, Wakefield LM, Zhu Y, Frier SM, Moriarity BS, Prasanth KV, Perez-Pinera P, Lal A. Prosurvival long noncoding RNA PINCR regulates a subset of p53 targets in human colorectal cancer cells by binding to Matrin 3. Elife. 2017 Jun 5;6.
