Difference between revisions of "NONHSAT008995"
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| − | + | ''BLACAT1'',also named ''linc-UBC1'' (Up-regulated in bladder cancer 1), which regulates histone modification status of target genes by physically associating with PRC2 complex. | |
==Annotated Information== | ==Annotated Information== | ||
| − | ===Transcriptomic | + | ===Transcriptomic Nomenclature=== |
| − | + | ''BLACAT1'':bladder cancer associated transcript 1(non-protein coding)(HGNC nomenclature) | |
| + | |||
| + | linc-UBC1, LINC00912, "long intergenic non-protein coding RNA 912", "long intergenic noncoding RNA up-regulated in bladder cancer"<ref name="ref1" /> | ||
| + | |||
| + | ===Cellular Localization=== | ||
| + | Nucleus<ref name="ref1" />. | ||
===Function=== | ===Function=== | ||
| − | + | [[File:''linc-UBC1'' physically associates with PRC2 components EZH2 and SUZ12.jpg|right|thumb|400px|'''linc-UBC1 physically associates with PRC2 components EZH2 and SUZ12. '''<ref name="ref1" />]] | |
| − | === | + | ''Linc-UBC1'' physically associates with PRC2 complex and regulates histone modification status of target genes, which serves as a negative prognostic factor for lymph node metastasis and survival in bladder cancer patients.<ref name="ref1" />. |
| − | + | ||
| + | |||
| + | ===Diseases=== | ||
| + | * Bladder cancer | ||
===Expression=== | ===Expression=== | ||
| − | + | ''BLACAT1'' is frequently overexpressed in bladder cancer tissues compared with normal adjacent tissues. | |
| + | |||
| − | === | + | {| class='wikitable' style="text-align:center" |
| − | + | |- | |
| + | ! | Primers for qRT-PCR | ||
| + | ! | Forward | ||
| + | ! | Reverse | ||
| + | |- | ||
| + | | rowspan="1"|''linc-UBC1'' (lincRNA:chr1:205404014-205407007) | ||
| + | | | 5’-CCTGCTTGGAAACTAATGACC-3’ | ||
| + | | | 5’-AGGCTCAACTTCCCAGACTCA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|lincRNA:chr10:4692376-4720283 | ||
| + | | | 5'-CGAGATGGAGCAAAGGATAAACG-3' | ||
| + | | | 5'-TCAGGGCCAGGAGGTGACTGGA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|lincRNA:chr18:37236595-37243620 | ||
| + | | | 5'-GTTACCCTTGCCCTTTGGATG-3' | ||
| + | | | 5'-GCCTTGTAGGCCCTCACAGAC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|lincRNA:chr4:15669186-15683175 | ||
| + | | | 5'-GGCCAGGACGCTGGTTCAT-3' | ||
| + | | | 5'-TCGGGAGGTTGTGGGAGGA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|GAPDAH | ||
| + | | |5’-GAAGGTGAAGGTCGGAGTC-3’ | ||
| + | | |5’-GAAGATGGTGATGGGATTTC-3’<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|HOTAIR | ||
| + | | |5'-GGTAGAAAAAGCAACCACGAAGC-3' | ||
| + | | |5'-ACATAAACCTCTGTCTGTGAGTGCC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|U1 | ||
| + | | |5’-GGGAGATACCATGATCACGAAGGT-3’ | ||
| + | | |5’-CCACAAATTATGCAGTCGAGTTTCCC-3’<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|CCND2 | ||
| + | | |5’-ACCTTCCGCAGTGCTCCTA-3’ | ||
| + | | |5’-CCCAGCCAAGAAACGGTCC-3’<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|SERPINB2 | ||
| + | | |5'-CAGCACCGAAGACCAGATGG-3' | ||
| + | | |5'-CCTGCAAAATCGCATCAGGATAA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|BMP2 | ||
| + | | |5'-ACCCGCTGTCTTCTAGCGT-3' | ||
| + | | |5'-TTTCAGGCCGAACATGCTGAG-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|KLF4 | ||
| + | | |5'-CGGACATCAACGACGTGAG-3' | ||
| + | | |5'-GACGCCTTCAGCACGAACT-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|HOXA5 | ||
| + | | |5'-AACTCATTTTGCGGTCGCTAT-3' | ||
| + | | |5'-TCCCTGAATTGCTCGCTCAC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|KLHDC8A | ||
| + | | |5'-TGGACTGCTTCGAGGTCTACT-3' | ||
| + | | |5'-CTTTGGCCGTGACAGAAATGC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|LEMD1 | ||
| + | | |5'-ATTGCAGAACCAACTTGAGAAGC-3' | ||
| + | | |5'-CGCGCAGTAGTCTCTCTCTT-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|CDK18 | ||
| + | | |5'-CAAAGGGCGCAGCAAACTG-3' | ||
| + | | |5'-AGGTCATGCAGGGTCACAATA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|EZH2 | ||
| + | | |5'-AATCAGAGTACATGCGACTGAGA-3' | ||
| + | | |5'-GCTGTATCCTTCGCTGTTTCC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|SUZ12 | ||
| + | | |5'-TTGCAGCTTACGTTTACTGGTT-3' | ||
| + | | |5'-GGAACTTGCCTTATTGGACAACT-3'<ref name="ref1" /> | ||
| + | |} | ||
| − | |||
| − | |||
| − | |||
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| − | + | * Department of Urology, Sun Yat-sen Memorial Hospital, 107th Yanjiangxi Road, Yuexiu District, Guangzhou, Guangdong province, PR China. <ref name="ref1" />. | |
==References== | ==References== | ||
| − | + | <references> | |
| + | <ref name="ref1"> He W, Cai Q, Sun F, Zhong G, Wang P, Liu H, et al. linc-UBC1 physically associates with polycomb repressive complex 2 (PRC2) and acts as a negative prognostic factor for lymph node metastasis and survival in bladder cancer[J]. Biochimica et biophysica acta. 2013,1832(10):1528-37. | ||
| + | </ref>(1) | ||
| + | </references> | ||
{{basic| | {{basic| | ||
tID = NONHSAT008995| | tID = NONHSAT008995| | ||
source = NONCODE4.0| | source = NONCODE4.0| | ||
| − | same = ,| | + | same =''BLACAT1'',''Linc-UBC1''| |
classification = intergenic| | classification = intergenic| | ||
length = 2616 nt| | length = 2616 nt| | ||
Revision as of 05:48, 9 April 2015
BLACAT1,also named linc-UBC1 (Up-regulated in bladder cancer 1), which regulates histone modification status of target genes by physically associating with PRC2 complex.
Contents
Annotated Information
Transcriptomic Nomenclature
BLACAT1:bladder cancer associated transcript 1(non-protein coding)(HGNC nomenclature)
linc-UBC1, LINC00912, "long intergenic non-protein coding RNA 912", "long intergenic noncoding RNA up-regulated in bladder cancer"[1]
Cellular Localization
Nucleus[1].
Function
linc-UBC1 physically associates with PRC2 components EZH2 and SUZ12. [1]
Linc-UBC1 physically associates with PRC2 complex and regulates histone modification status of target genes, which serves as a negative prognostic factor for lymph node metastasis and survival in bladder cancer patients.[1].
Diseases
- Bladder cancer
Expression
BLACAT1 is frequently overexpressed in bladder cancer tissues compared with normal adjacent tissues.
| Primers for qRT-PCR | Forward | Reverse |
|---|---|---|
| linc-UBC1 (lincRNA:chr1:205404014-205407007) | 5’-CCTGCTTGGAAACTAATGACC-3’ | 5’-AGGCTCAACTTCCCAGACTCA-3'[1] |
| lincRNA:chr10:4692376-4720283 | 5'-CGAGATGGAGCAAAGGATAAACG-3' | 5'-TCAGGGCCAGGAGGTGACTGGA-3'[1] |
| lincRNA:chr18:37236595-37243620 | 5'-GTTACCCTTGCCCTTTGGATG-3' | 5'-GCCTTGTAGGCCCTCACAGAC-3'[1] |
| lincRNA:chr4:15669186-15683175 | 5'-GGCCAGGACGCTGGTTCAT-3' | 5'-TCGGGAGGTTGTGGGAGGA-3'[1] |
| GAPDAH | 5’-GAAGGTGAAGGTCGGAGTC-3’ | 5’-GAAGATGGTGATGGGATTTC-3’[1] |
| HOTAIR | 5'-GGTAGAAAAAGCAACCACGAAGC-3' | 5'-ACATAAACCTCTGTCTGTGAGTGCC-3'[1] |
| U1 | 5’-GGGAGATACCATGATCACGAAGGT-3’ | 5’-CCACAAATTATGCAGTCGAGTTTCCC-3’[1] |
| CCND2 | 5’-ACCTTCCGCAGTGCTCCTA-3’ | 5’-CCCAGCCAAGAAACGGTCC-3’[1] |
| SERPINB2 | 5'-CAGCACCGAAGACCAGATGG-3' | 5'-CCTGCAAAATCGCATCAGGATAA-3'[1] |
| BMP2 | 5'-ACCCGCTGTCTTCTAGCGT-3' | 5'-TTTCAGGCCGAACATGCTGAG-3'[1] |
| KLF4 | 5'-CGGACATCAACGACGTGAG-3' | 5'-GACGCCTTCAGCACGAACT-3'[1] |
| HOXA5 | 5'-AACTCATTTTGCGGTCGCTAT-3' | 5'-TCCCTGAATTGCTCGCTCAC-3'[1] |
| KLHDC8A | 5'-TGGACTGCTTCGAGGTCTACT-3' | 5'-CTTTGGCCGTGACAGAAATGC-3'[1] |
| LEMD1 | 5'-ATTGCAGAACCAACTTGAGAAGC-3' | 5'-CGCGCAGTAGTCTCTCTCTT-3'[1] |
| CDK18 | 5'-CAAAGGGCGCAGCAAACTG-3' | 5'-AGGTCATGCAGGGTCACAATA-3'[1] |
| EZH2 | 5'-AATCAGAGTACATGCGACTGAGA-3' | 5'-GCTGTATCCTTCGCTGTTTCC-3'[1] |
| SUZ12 | 5'-TTGCAGCTTACGTTTACTGGTT-3' | 5'-GGAACTTGCCTTATTGGACAACT-3'[1] |
Labs working on this lncRNA
- Department of Urology, Sun Yat-sen Memorial Hospital, 107th Yanjiangxi Road, Yuexiu District, Guangzhou, Guangdong province, PR China. [1].
References
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 He W, Cai Q, Sun F, Zhong G, Wang P, Liu H, et al. linc-UBC1 physically associates with polycomb repressive complex 2 (PRC2) and acts as a negative prognostic factor for lymph node metastasis and survival in bladder cancer[J]. Biochimica et biophysica acta. 2013,1832(10):1528-37.
Basic Information
| Transcript ID |
NONHSAT008995 |
| Source |
NONCODE4.0 |
| Same with |
BLACAT1,Linc-UBC1 |
| Classification |
intergenic |
| Length |
2616 nt |
| Genomic location |
chr1-:205404014..205425214 |
| Exon number |
2 |
| Exons |
205404014..205406459,205425045..205425214 |
| Genome context |
|
| Sequence |
000001 GTGCGCCCCG TGCTAACCCA TTGAAGAATA ATTATTTTTC TCCACTGGAA GCTACAGCAG AGAATCGGAC AAGGAGGGAA 000080
000081 GAAAGAGATT GGTgaggggg agagagagag aaagagagag agagaCACAA AGGAAGTGAG TGCAAGAGGA GCCGGCTTAG 000160 000161 CATCTAAACT catcaccacc accaccacca caaccaccTG CAGATAGATG CTCAAGTGAT TCTAGAAGAG ATCTCAAGGA 000240 000241 CTGGCGCTCT GCTCCAGTTA TGTAACCCAT GGGCTTCCCT TTGCACAGCT CCTCATGTGC TCATCTCCAT GCTGATCAAA 000320 000321 CCACCCCACC TCATTCCTTG CCTTCTGCAA GGGGAAGTGC CTCAGGCTGG AGTTTGTCCT GTCTACAGAC TGAATATGCA 000400 000401 TTTTGCCCAG TGGCTGGAGA TGTGCTGGTG GTGGAATGTG CTGGTGATTG TTTCTGGATG GAGAGCCACA GCCCCCCAGT 000480 000481 GTTCTGCCAT GACTGACTCC TGACCTTGGC AAATTGCCTC CTCTCTCCCA GCCTCCTCCA TAACAGGTGG CGATGAGTCC 000560 000561 CATTTCCTCC CTACCTCACA GGAAGGCACG CATTATAAAG GGCACACTTA TCAGATGTGC CCAGATGTGG CTGGAACTTT 000640 000641 TGGAGACAGA TACTTGGTTC ACAACTGCAA AGGTGGGCTT TCACCAGAGA AGAAAATCTC TGGGCTGCTG AGTTCAGTGG 000720 000721 GCTCCTTGCA GGCTGGTCCA GGAAGTCTGG TGTTCCTCCT GAAGGTGGCT GCTATGTCCA GCAGGTGATC AAGCTGACAG 000800 000801 TACCACAAGA ACCAAGAAAC AGAATCTGTT CCCAAGGAAT GAATGTTCTA TCTCTCTGAC CCAAAAGCAA GAGCAAGAGA 000880 000881 GAGCTGTCAC CATCATCACC CTGCTCCCAA CACAAACACA GCCCCCCAAG TCCATATTGC TGACAAGGGT ATCTGCCTTG 000960 000961 TCAGGGTGAA TCCTCTGGAC CCCAGGCCAT CCCTGGAGTG GTCAGTGCCC ACTGTGCCGG GGTTATTGTG GCCAGTCCGC 001040 001041 CTGGGTTCGC TTCTCTAAAT TTCCATGGGA TAGGAACTAT AGATCATGAA GAAGAAACAG GAACCTTGAC TCTTCACGGA 001120 001121 GGAGCCCAGG AGGTCAGAAC CATCCACCAG GAGGGTGAGC GGTAGCTGCC CAGGGCATCC CTGGAGGAAG TCGTCATACT 001200 001201 GAGGAAGAAA TTGCCAAAGC CAAGAGCTCC CAGACCTGGG CAGCTCAGGA GCTGACAGAA ACCACCCCCC AGGTCTGGAG 001280 001281 TTCAAGGGTT TTCCTCGTGG GCTGCTGGTC TGTCTCTTTC CCTTCTGGGG CAGCCGTCTC TCCTCCTTCA GCTCATTCCC 001360 001361 GTGTTCCATC TGAGGGGCGG GAGGAAGGCA GGAGGGGGAG ATGGCAGGAC CCAGACAGAT CCTCAGGACT CTCCCAGCCT 001440 001441 CTGTTGCCAT GGCAACACTG CTATTTTTAT CCCGTTGTTC ATGATGCTCA AAGCTCTAAC TTTCTCTGTT CCAGAGAGGC 001520 001521 CAGGCTGGTT TCTGCCCTCA TCCTTTAACA CAGCATCTTC TCCCAGAGGC CTGAGGATGG GAAAAAGTGA TGGAGAAAAG 001600 001601 GGGAACCCCT AAGGTCACCC CTCAGCCAGG GGGAACTGTT TAACAGGGGT TTGTCTCTGC CCTTTTGAGC CTTTGGTTTT 001680 001681 CTACCTGGCT CAGGCACCCA GGTTTATGTT TTCTAGATCA AAACTCTGCA TGGTCTCCCT GAGAGACTGG AAAAGAGCTG 001760 001761 CCAATCAGGA TGGATTTTTT CCTACACAGG TATGACACTG CAGCCACTTC CCTTCTTGGG AAAATTAAAC TTCATTCTGA 001840 001841 AGAATGTCCT GTTGGTGGTA TAAGCCAACC CCTGCCCTCC TAAAAGGGGA TAGATAATTA AATTTGGTTA ATTAGCAATC 001920 001921 AGATTCACTG GGGAATTGAA ACCAGTACTT CCCTTTCTTC TGTCCCTCCA CCAAAGAACC GGAACAAATG GCTTCATGTC 002000 002001 TTTGTCCAGT CTTTCTGCCT AAAGCAAAAT AGCATATATT CTCCAGGCTG AAAAGTAGAT TCCTCCTCAC CCCTACTCAA 002080 002081 GATGGCCACA TTTCAATCCA GGCTCTTGAA GACAGGGTCT AATGAAAGGA TTTCTGTTCT TTCTCTGTCT GTTCCCTCTG 002160 002161 GCCCAGCTTC TAGTCCTCTC CTTATGTCCC CACCTCCATG GCAGTGGCAA GAGACCCCTG AGAGTCAATG GTGCTAACGT 002240 002241 TCCCCACCTA TATACCCCTA TGTAGTTTAT CGAGATTTGA ACCCAGCACC TGGGTGGCTG TGTTGGGCGG ATACATTTCA 002320 002321 CGTCCTCAAG ACCACAACCC TGGCGACAGG TCTGGATTAA TTCTGTAAAG TAGCAATCTA TATCATGCTA AACTCCTGCA 002400 002401 CTGAGGTTCT TCCTCGGCTG AACTGACTCG TGGATGGTTA AGTTTCCTGG GGTGGCTGGA ACCCATTTAC TAAGCCTCTA 002480 002481 ATTGGTTTCA TTTTGGCTCA AGTTGCATGG TTTCCCGAAT CTATGCACCT GGAGTAAGCA CTTTTCTGGT TGCCACTGAA 002560 002561 AAGCATGCCG GCAAACGCTG CTCTGTTAAT TGCTGTAATA AACAGACTTT ATTATA |
