Difference between revisions of "ENST00000452148.2"
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==Annotated Information==
===Transcriptomic Nomeclature===
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| − | + | ''PCAT7'', 1322 bp long non-coding RNA, prostate cancer associated transcript 7. | |
==Annotated Information== | ==Annotated Information== | ||
| − | === | + | ===Name=== |
| − | + | ''PCAT7'': prostate cancer associated transcript 7 (non-protein coding)(HGNC nomenclature) | |
| + | |||
| + | ''PCAN-R2'', "prostate cancer-associated noncoding RNA 2"<ref name="ref1" /> | ||
| + | |||
| + | ===Characteristics=== | ||
| + | Prostate Cancer Associated Non-coding RNA 2, abbreviated as PCAN-R2 (Ensembl ID ENSG00000231806). PCAN-R2 showed positive correlation between gene expression and SCNA.<ref name="ref1" /> | ||
| + | PCAN-R2, the major isoform had an extra exon in the 5’end, and the remaining two exons also had different lengths from the Ensembl annotation. The new 5’ exon of PCAN-R2 was more consistent with the profile of H3K4me3, a histone mark of active promoter and the profile of DNase I hypersensitive regions in LNCaP cells.<ref name="ref1" /> | ||
===Function=== | ===Function=== | ||
| − | + | Associated with cancer subtypes and clinical prognosis, and is a potential driver of cancer progression.<ref name="ref1" />. | |
===Regulation=== | ===Regulation=== | ||
| − | + | The new 5′exon of PCAN-R2 was more consistent with the profile of H3K4me3, a histone mark of active promoter and the profile of DNase I hypersensitive regions (i.e. the regions with an open chromatin state) in LNCaP cells <ref name="ref1" />. | |
===Expression=== | ===Expression=== | ||
| − | + | PCAN-R2 showed a similar expression across different tissues<ref name="ref1" />. | |
| − | |||
| − | = | ||
| − | |||
| − | |||
| − | |||
| − | |||
| − | + | ===Disease=== | |
| + | Prostate cancer<ref name="ref1" />. | ||
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| − | + | * Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China.<ref name="ref1" /> | |
==References== | ==References== | ||
| − | + | <references> | |
| + | <ref name="ref1">Du Z, Fei T, Verhaak RG, Su Z, Zhang Y, Brown M, et al. Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer[J]. Nature structural & molecular biology. 2013,20(7):908-13.</ref>(1) | ||
| + | </references> | ||
{{basic| | {{basic| | ||
tID = ENST00000452148.2| | tID = ENST00000452148.2| | ||
source = Gencode19| | source = Gencode19| | ||
| − | same = ,| | + | same = ''PACT7'', ''PCAN-R2''| |
classification = antisense| | classification = antisense| | ||
length = 1164 nt| | length = 1164 nt| | ||
| Line 42: | Line 45: | ||
sequence = <dnaseq>ATGCGCATAACCTCAGGATATAAATAATGCTGAAGCAGAGTTACGTTTTTTTTGTTGTTGTTTTTTTTGTTTTTGTTTTTTTAGGTTTCCGTGTGTTTCTATTGAGCTGCTCAGTGCCCGGCTTAGAAGACCAGGAAAAGGAGTCACAGGTCGTATGCTGGAGGCTTGAGCCGCGGCACCGTGGCGCGGCTCGCCTCGCTGCGGTTGGTGGTGGCGGTGGACATTGCAGCGCGGCTGGAGGGGTGAGATATTCCTGCACATCCTCTGGTGACCCCAGAATGAGGGGGACTCGCTGGTGAATTGCCTCGGGCTTCACGTCCAGTACAGGCTGGGTCCCCGTGGTCGCCAAGCCTCCTGCCTGCTCAATGATGTAGGCCACGGGATTGCATTCATACAGGAGCCGGAGCTGTGGAGGAACAGAGGCAGGACAAATTCACCAAGAGCCTAGCAACATGAAGAGAGATGCCAGGAAGAAGAGAGAAGCCAGGAAACAAGCCAACCGCACAATCCCCACATCAGAGCAGGAGAAGATGGGGGCCTGCTGGCAGAGCTGGGGCTTGGCTGTGGTCACTCTGAACCTGCTCTTTGGTGTTTTCATGAGTGGTGGGAAGAATAGGGACCATATGGAGCCCACACAGGAAGCTCTAGCAGTAACACAGCAAGCAGGAAGACAATTCTAAGGAAGCAGCCCATAGTCTTCTTTCTTTTCCTGTGCATCTTCCACTGTCAGTGAGGCTCCTCATTTATGGTGAACCCAACTGTGTGTATCTCCCAAGTTCTCACCCGCAGATTAATGTTTTCAGGAAGATAGGCCATCAACAGTGAGAGGAAGAAGTTACATTGTCGTATGAGGGATGCATTTTAACCATTAATTTGTGGTACAGGCTGGGCGCAGTGGCTTATGCATGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTTTACTAAATATACAAAAAATTGGCCGGGCGTGGTGGTGGGCACCTGTAGTCCCAGCTACTCGGGGGGCTGAGGCAGGAGAATGGTGTGAACCCGGGAGGCAGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGATGACAGAGCAAGACTCCATCTC</dnaseq>| | sequence = <dnaseq>ATGCGCATAACCTCAGGATATAAATAATGCTGAAGCAGAGTTACGTTTTTTTTGTTGTTGTTTTTTTTGTTTTTGTTTTTTTAGGTTTCCGTGTGTTTCTATTGAGCTGCTCAGTGCCCGGCTTAGAAGACCAGGAAAAGGAGTCACAGGTCGTATGCTGGAGGCTTGAGCCGCGGCACCGTGGCGCGGCTCGCCTCGCTGCGGTTGGTGGTGGCGGTGGACATTGCAGCGCGGCTGGAGGGGTGAGATATTCCTGCACATCCTCTGGTGACCCCAGAATGAGGGGGACTCGCTGGTGAATTGCCTCGGGCTTCACGTCCAGTACAGGCTGGGTCCCCGTGGTCGCCAAGCCTCCTGCCTGCTCAATGATGTAGGCCACGGGATTGCATTCATACAGGAGCCGGAGCTGTGGAGGAACAGAGGCAGGACAAATTCACCAAGAGCCTAGCAACATGAAGAGAGATGCCAGGAAGAAGAGAGAAGCCAGGAAACAAGCCAACCGCACAATCCCCACATCAGAGCAGGAGAAGATGGGGGCCTGCTGGCAGAGCTGGGGCTTGGCTGTGGTCACTCTGAACCTGCTCTTTGGTGTTTTCATGAGTGGTGGGAAGAATAGGGACCATATGGAGCCCACACAGGAAGCTCTAGCAGTAACACAGCAAGCAGGAAGACAATTCTAAGGAAGCAGCCCATAGTCTTCTTTCTTTTCCTGTGCATCTTCCACTGTCAGTGAGGCTCCTCATTTATGGTGAACCCAACTGTGTGTATCTCCCAAGTTCTCACCCGCAGATTAATGTTTTCAGGAAGATAGGCCATCAACAGTGAGAGGAAGAAGTTACATTGTCGTATGAGGGATGCATTTTAACCATTAATTTGTGGTACAGGCTGGGCGCAGTGGCTTATGCATGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTTTACTAAATATACAAAAAATTGGCCGGGCGTGGTGGTGGGCACCTGTAGTCCCAGCTACTCGGGGGGCTGAGGCAGGAGAATGGTGTGAACCCGGGAGGCAGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGATGACAGAGCAAGACTCCATCTC</dnaseq>| | ||
}} | }} | ||
| − | [[Category:Antisense]] | + | [[Category:Antisense]][[Category:ENSG00000231806.2]][[Category:Transcripts]] |
Latest revision as of 07:50, 3 April 2018
PCAT7, 1322 bp long non-coding RNA, prostate cancer associated transcript 7.
Contents
Annotated Information
Name
PCAT7: prostate cancer associated transcript 7 (non-protein coding)(HGNC nomenclature)
PCAN-R2, "prostate cancer-associated noncoding RNA 2"[1]
Characteristics
Prostate Cancer Associated Non-coding RNA 2, abbreviated as PCAN-R2 (Ensembl ID ENSG00000231806). PCAN-R2 showed positive correlation between gene expression and SCNA.[1] PCAN-R2, the major isoform had an extra exon in the 5’end, and the remaining two exons also had different lengths from the Ensembl annotation. The new 5’ exon of PCAN-R2 was more consistent with the profile of H3K4me3, a histone mark of active promoter and the profile of DNase I hypersensitive regions in LNCaP cells.[1]
Function
Associated with cancer subtypes and clinical prognosis, and is a potential driver of cancer progression.[1].
Regulation
The new 5′exon of PCAN-R2 was more consistent with the profile of H3K4me3, a histone mark of active promoter and the profile of DNase I hypersensitive regions (i.e. the regions with an open chromatin state) in LNCaP cells [1].
Expression
PCAN-R2 showed a similar expression across different tissues[1].
Disease
Prostate cancer[1].
Labs working on this lncRNA
- Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China.[1]
References
Basic Information
| Transcript ID |
ENST00000452148.2 |
| Source |
Gencode19 |
| Same with |
PACT7, PCAN-R2 |
| Classification |
antisense |
| Length |
1164 nt |
| Genomic location |
chr9+:97317351..97330409 |
| Exon number |
3 |
| Exons |
97317351..97317592,97321251..97321434,97329672..97330409 |
| Genome context |
|
| Sequence |
000001 ATGCGCATAA CCTCAGGATA TAAATAATGC TGAAGCAGAG TTACGTTTTT TTTGTTGTTG TTTTTTTTGT TTTTGTTTTT 000080
000081 TTAGGTTTCC GTGTGTTTCT ATTGAGCTGC TCAGTGCCCG GCTTAGAAGA CCAGGAAAAG GAGTCACAGG TCGTATGCTG 000160 000161 GAGGCTTGAG CCGCGGCACC GTGGCGCGGC TCGCCTCGCT GCGGTTGGTG GTGGCGGTGG ACATTGCAGC GCGGCTGGAG 000240 000241 GGGTGAGATA TTCCTGCACA TCCTCTGGTG ACCCCAGAAT GAGGGGGACT CGCTGGTGAA TTGCCTCGGG CTTCACGTCC 000320 000321 AGTACAGGCT GGGTCCCCGT GGTCGCCAAG CCTCCTGCCT GCTCAATGAT GTAGGCCACG GGATTGCATT CATACAGGAG 000400 000401 CCGGAGCTGT GGAGGAACAG AGGCAGGACA AATTCACCAA GAGCCTAGCA ACATGAAGAG AGATGCCAGG AAGAAGAGAG 000480 000481 AAGCCAGGAA ACAAGCCAAC CGCACAATCC CCACATCAGA GCAGGAGAAG ATGGGGGCCT GCTGGCAGAG CTGGGGCTTG 000560 000561 GCTGTGGTCA CTCTGAACCT GCTCTTTGGT GTTTTCATGA GTGGTGGGAA GAATAGGGAC CATATGGAGC CCACACAGGA 000640 000641 AGCTCTAGCA GTAACACAGC AAGCAGGAAG ACAATTCTAA GGAAGCAGCC CATAGTCTTC TTTCTTTTCC TGTGCATCTT 000720 000721 CCACTGTCAG TGAGGCTCCT CATTTATGGT GAACCCAACT GTGTGTATCT CCCAAGTTCT CACCCGCAGA TTAATGTTTT 000800 000801 CAGGAAGATA GGCCATCAAC AGTGAGAGGA AGAAGTTACA TTGTCGTATG AGGGATGCAT TTTAACCATT AATTTGTGGT 000880 000881 ACAGGCTGGG CGCAGTGGCT TATGCATGTA ATCCCAGCAC TTTGGGAGGC CGAGGTGGGT GGATCACGAG GTCAGGAGAT 000960 000961 CGAGACCATC CTGGCTAACA TGGTGAAACC CCGTCTTTAC TAAATATACA AAAAATTGGC CGGGCGTGGT GGTGGGCACC 001040 001041 TGTAGTCCCA GCTACTCGGG GGGCTGAGGC AGGAGAATGG TGTGAACCCG GGAGGCAGAG CTTGCAGTGA GCCGAGATCG 001120 001121 CGCCACTGCA CTCCAGCCTG GATGACAGAG CAAGACTCCA TCTC |
