ENST00000513868.2

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Please cite: Chunlei Yu (2016) lncRNA: "ENST00000513868.2" in LncRNAWiki, available at http://lncrna.big.ac.cn/index.php?title=ENST00000513868.2&oldid=1272260 (Last update: Jul 01, 2016). [See details]

PVT1,1716 bp long intergenic non-coding RNA in 8q24, which was regulated by Myc proteins,may function with c-Myc and N-Myc genes.

Contents

Annotated Information

Name

PVT1:Pvt1 oncogene (non-protein coding)(HGNC nomenclature)

LINC00079, "long intergenic non-protein coding RNA 79", NCRNA00079, "non-protein coding RNA 79"[1]

Characteristics

PVT-1 gene is located on chromosome 8 telomeric to the c-Myc gene and it is frequently involved in the translocations occurring in variant Burkitt's lymphomas and murine plasmacytomas[1].

PVT-1 gene contains two non canonical Myc-binding sites (E-box CACGCG) in the promoter region proximal to the transcriptional start site (−155/−95) the consensus and the surrounding sequences are conserved in the homologous mouse and rat genes[1].

Function

PVT-1 is a downstream target of both c-Myc and N-Myc genes[1].

The E-boxes region in the PVT-1 proximal promoter is important for PVT-1 transcriptional regulation by Myc proteins and reveal a novel cross-talk between PVT-1 and N-Myc in neuroblastoma cells[1].

Regulation

The E-boxes region in the PVT-1 proximal promoter is important for PVT-1 transcriptional regulation by Myc proteins[1].

PVT-1 transactivation by c-Myc [1].

Expression

Primer Forward Reverse
PVT-1 CAT GGT TCC ACC AGC GTT ATT C TCC TTG CGG AAA GGA TGT TGG[1]
c- Myc CAG CAG AGC GAG CTG CAG CC CTG TCT TTG CGC GCA GCC TG[1]
N-Myc CAG CAG AGC GAG CTG CAG CC CTG TCT TTG CGC GCA GCC TG[1]
GAPDH TGA CAT CAA GAA GGT GGT GA TCC ACC ACC CTG TTG CTG TA[1]

Evolution

A computer-assisted alignment of the human PVT-1 promoter nucleotidesequence with the homologous mouse and rat sequences,indicates the existence of a significant evolutionary conservation both at the nucleotide level and in the spacing ofthe E-boxes relative to the transcriptional start site.

Disease

breast cancer, Burkitt's lymphomas, diabetic nephropathy, Hodgkin's lymphoma, lymphoma, murine plasmacytomas, ovarian cancer, pancreas cancer, prostate cancer,renal cancer

Labs working on this lncRNA

  • Dipartimento di Oncologia Sperimentale e Applicazioni Cliniche, Università di Palermo, Palermo, Italy[1].

References

  1. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 Carramusa L, Contino F, Ferro A, Minafra L, Perconti G, Giallongo A, et al. The PVT-1 oncogene is a Myc protein target that is overexpressed in transformed cells[J]. Journal of cellular physiology. 2007,213(2):511-8.

Basic Information

Transcript ID

ENST00000513868.2

Source

Gencode19

Same with

lnc-MYC-2:14,NONHSAT129063,PVT1,LINC00079

Classification

intergenic

Length

1699 nt

Genomic location

chr8+:128902874..129113499

Exon number

8

Exons

128902874..128903244,128951754..128951922,128996150..128996450,129001408..129001537,129082406..129082518,129108764..129108900,129111616..129111819,129113226..129113499

Genome context

Sequence
000001 CTCAAGATGG CTGTGCCTGT CAGCTGCATG GAGCTTCGTT CAAGTATTTT CTGAGCCTGA TGGATTTACA GTGATCTTCA 000080
000081 GTGGTCTGGG GAATAACGCT GGTGGAACCA TGCACTGGAA TGACACACGC CCGGCACATT TCAGGATACT AAAAGTGGTT 000160
000161 TTAAGGGAGG CTGTGGCTGA ATGCCTCATG GATTCTTACA GCTTGGATGT CCATGGGGGA CGAAGGACTG CAGCTGGCTG 000240
000241 AGAGGGTTGA GATCTCTGTT TACTTAGATC TCTGCCAACT TCCTTTGGGT CTCCCTATGG AATGTAAGAC CCCGACTCTT 000320
000321 CCTGGTGAAG CATCTGATGC ACGTTCCATC CGGCGCTCAG CTGGGCTTGA GCTGACCATA CTCCCTGGAG CCTTCTCCCG 000400
000401 AGGTGCGCGG GTGACCTTGG CACATACAGC CATCATGATG GTACTTTAAG TGGAGGCTGA ATCATCTCCC CTTTGAGCTG 000480
000481 CTTGGCACGT GGCTCCCTTG GTGTTCCCCT TTTACTGCCA GGACACTGAG ATTTGGAGAG AGTCTCACTC TGTGGTCCAG 000560
000561 GCTGAAGTAC AGTGGCATGA TCCCAGGTCA CTGCAACCCC CACCTCCCGG GTTCAAGTGA TCCTCCTGCC TCAGCCTCCC 000640
000641 GAGTAGCTGG TATTACAGGC GTGTGCCACA AAGCCTGGCT AAGTTTTGTA TTTTTAGTAG AGACGGGGTT TCACCATGTT 000720
000721 GGCCAGGTTG GTCTCGAACT CCTGACCTCA AGTGATCCAC TCACTTTGGC CTTTCAACGT GCTGGGATTA CAGGCGAGAG 000800
000801 TCACCGCACC CGGACGACTC TGACATTTTT GAAGAGTCCA GAATCCTGTT ACACCTGGGA TTTAGGCACT TTCAATCTGA 000880
000881 AAAAATACAT ATCCTTTCAG CACTCTGGAC GGACTTGAGA ACTGTCCTTA CGTGACCTAA AGCTGGAGTA TTTTGAGATT 000960
000961 GGAGAATTAA GAGCCAGTCT TGGTGCTCTG TGTTCACCTG GTTCATCTGA GGAGCTGCAT CTACCCTGCC CATGCCATAG 001040
001041 ATCCTGCCCT GTTTGCTTCT CCTGTTGCTG CTAGTGGACA TGAGAAGGAC AGAATAACGG GCTCCCAGAT TCACAAGCCC 001120
001121 CACCAAGAGG ATCACCCCAG GAACGCTTGG AGGCTGAGGA GTTCACTGAG GCTACTGCAT CTTGAGACTC AGGATGAAGA 001200
001201 CCCAGCTTGG GGCTGTCAAA GAGGCCTGAA GAGGCAGAAC ACCCCAGAGG AGCCTGGGGC CACCACCCAG CATCACTGTG 001280
001281 GGAAAACGGC AGCAGGAAAT GTCCTCTCGC CTGCGTGCTC CACCTCGGTC CACGCCTTCC CTCCTTCTGG AAGCCTTGCC 001360
001361 TGACCACTGG CCTGCCCCTT CTATGGGAAT CACTACTGAC CTTGCAGCTT ATTATAGACT TATATGTTTT TTGCATGTCT 001440
001441 GACACCCATG ACTCCACCTG GACCTTATGG CTCCACCCAG AAGCAATTCA GCCCAACAGG AGGACAGCTT CAACCCATTA 001520
001521 CGATTTCATC TCTGCCCCAA CCACTCAGCA GCAAGCACCT GTTACCTGTC CACCCCCACC CCTTCCCCCA AACTGCCTTT 001600
001601 GAAAAATCCC TAACCTATGA GCTTTGAATA AGATGAGTAC GAACTTCATC GCCCACGTGG CGTGGCCGGC CTCGTGTCTA 001680
001681 TTAAATTCTT TTTCTACTA
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Predicted Small Protein

Name ENST00000513868.2_smProtein_206:448
Length 81
Molecular weight 8571.0033
Aromaticity 0.025
Instability index 49.55375
Isoelectric point 5.18756103516
Runs 12
Runs residual 0.0111842105263
Runs probability 0.0499838073367
Amino acid sequence MSMGDEGLQLAERVEISVYLDLCQLPLGLPMECKTPTLPGEASDARSIRRSAGLELTILP
GAFSRGARVTLAHTAIMMVL
Secondary structure LLLLHHHHLHHHHEEEEEEELLLLLLLLLLLLLLLLLLLLLLLLHHHHHHHLLLEEEELL
LLLLLLLLHHHHHHHHHHHL
PRMN -
PiMo -
Please cite: Chunlei Yu (2016) lncRNA: "ENST00000513868.2" in LncRNAWiki, available at http://lncrna.big.ac.cn/index.php?title=ENST00000513868.2&oldid=1272260 (Last update: Jul 01, 2016).
ContributorContribution Score*Edit Count#Summed Edit QuantityΛAveraged Edit QualityLatest Edit TimeEdit Details
Chunlei Yu1.897119090.9942016-06-25 14:35:49[show]
Contributors with score < 1 are excluded from the authorship.
ContributorContribution Score*Edit Count#Summed Edit QuantityΛAveraged Edit QualityLatest Edit TimeEdit Details
Lin Liu0.29913290.9092016-06-30 13:47:03[show]
Lina Ma0.187118712016-07-01 10:19:56[show]
Note: For each edit version that is contributed by a specific person, his/her contribution is quantified as its edit quality multiplied by its edit quantity; the edit quantity amounts to the edit distance in comparsion with its previous version (that is, the minimum number of edit operations required to transform one string into the other), and the edit quality corresponds to whether the edit persists in comparison with the last version, ranging from -1, when the edit is entirely reverted (short-lived), to 1, indicating that the edit is totally preserved in the last version (long-lived). Please also note that contribution quantification may take time to reflect recent edits.
*Since one person may perform many discontinuous edits for a wiki page, contribution score is the sum of quantified contributions over all participated edits.
#Multiple successive edits provided by a researcher are counted as one edit.
ΛSummed edit quantity is the sum of edit quantities over all participated edits.
Averaged edit quality is the edit quality normalized over all participated edits.
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