Difference between revisions of "ENST00000502056.1"
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''CARLo-1'', LINC008600,"long intergenic non-protein coding RNA 860" <ref name="ref1" /> | ''CARLo-1'', LINC008600,"long intergenic non-protein coding RNA 860" <ref name="ref1" /> | ||
| + | |||
| + | LncBook ID: [https://bigd.big.ac.cn/lncbook/transcript?transid=HSALNT0143635 HSALNT0143635] | ||
| + | |||
===Characteristics=== | ===Characteristics=== | ||
''CASC8'', a long non-coding RNA, which overlapped POU5F1B gene,located in located in 8q24.21 region<ref name ="ref2" />. | ''CASC8'', a long non-coding RNA, which overlapped POU5F1B gene,located in located in 8q24.21 region<ref name ="ref2" />. | ||
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! | LncRNA | ! | LncRNA | ||
! | Experiment | ! | Experiment | ||
| − | ! | | + | ! | Probe/Primer |
|- | |- | ||
| rowspan="1"|CARLo-1 v1&3 | | rowspan="1"|CARLo-1 v1&3 | ||
| Line 129: | Line 132: | ||
===Disease=== | ===Disease=== | ||
| − | Colorectal Cancer | + | Colorectal Cancer<ref name="ref1" /> |
| + | Breast Cancer<ref name="ref1" /> | ||
===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
Latest revision as of 13:05, 11 August 2019
CASC8: cancer susceptibility candidate 8,located in 8q24.21 region, is suggested to relate with cancer, such as colorectal cancer, prostate cancer, intestinal tumor，[1] and gastric cancer[2]
Contents
Annotated Information
Name
CASC8: cancer susceptibility candidate 8(non-protein coding)(HGNC nomenclature)
CARLo-1, LINC008600,"long intergenic non-protein coding RNA 860" [1]
LncBook ID: HSALNT0143635
Characteristics
CASC8, a long non-coding RNA, which overlapped POU5F1B gene,located in located in 8q24.21 region[2].
Function
CASC8 may presumably play a key role in modulating the recruitment of general transcription factors on the promoter of its cognate gene, POU5F1B, which was found to be a putative cancer susceptibility gene. It is biologically plausible that allele of rs10505477 further alters the fine turning interactions between the CASC8 and POU5F1B. [2].
Expression
| LncRNA | Experiment | Probe/Primer |
|---|---|---|
| CARLo-1 v1&3 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3′ nested PCR and sequencing |
GGCAGGTTGTGTGTCACGCCCTCCACT
ATGTTTCATTGGCTGAAGCTCAATTG CCTCAGGAACACACATGGATGATTCT AAAGAGTATGGAGGCTTGAACATGGC AGTGGAGGGCGTGACACACAACCTGCC GCCATGTTCAAGCCTCCATACTCTTT[1] |
| CARLo-1 v2&4 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3’nested PCR and sequencing |
GCTCCTGGTCCATGCCATTCATCAATTG
GCTGAGGACAGAAGGCATTGGTCT GAGCATCCGAATAAATAAACATACAAATGC ATTTTTCACCTGCTTCAGTGCCATTGT GAGACCAATGCCTTCTGTCCTCAGC AATTGATGAATGGCATGGACCAGG[1] |
| CARLo-2 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3′ nested PCR and sequencing |
CCTTGACTTGAGCCCAGGTCACCATGC
ACGTCTTCTCTTGGCTCCTCTGGAT AAACTATTGATGCAGTGTCCAAGGTGG ACATCAGTTAAAAGGCCAACAGGAACC GCATGGTGACCTGGGCTCAAGTCAAGG CTTATTTCTCTGCTGAACCATCACA[1] |
| CARLo-3 | CARLo-3 | TGGGCCTAGTACTTGGAGACGGGGACTG
TTGGATGATAGTGAAGGTGAACGTCTCT AACGAAGAGCATCACCATTTCCACCA ACTCTCCTAATGGGCCTAGTACTTGGAGAC AACGAAGAGCATCACCATTTCCACCACC AGAGACGTTCACCTTCACTATCATCCAA[1] |
| CARLo-4 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3′ nested PCR and sequencing |
GTGACAGACGGAGTGCTGATGCCTCTGG
AATCTCTTCACATTGTGGAGTTTCTCCTC ATCTAGCAAATAGGCATCTGTCACAGAAAATAGA ATCAGCCTAACCAGCACGCATAAACTAAAC CCAGAGGCATCAGCACTCCGTCTGTCAC TCTGTCACTATTGGCATCCTGTGACA[1] |
| CARLo-5 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3′ nested PCR and sequencing |
GGGTTGAGAAGGGGTGAAGGGACACTGG
AAGTGAAGCTGGGAAGTTTGCACTTG GCCACAAATCAACAACAACAACAACAA AGAGTGATGCCAAGGCTGTTATTGTCAA CCAGTGTCCCTTCACCCCTTCTCAACCC[1] |
| CARLo-6 | 5′ RACE
5′ nested PCR and sequencing Internal-F and sequencing Internal-R and sequencing 3′ RACE 3′ nested PCR and sequencing |
GGGTGCCATCACAGTCAGTTTGGACAGC
CTTGAATGCTATCAGGGAAGCTAGAGTG CTTAGAATTGGAGTGCCTGGGTTAGAA GCAGTCATTCAGGAATTGAAGCTGATA GCTGTCCAAACTGACTGTGATGGCACCC AGACAGACAGCGATGCCACATGTT[1] |
Disease
Colorectal Cancer[1] Breast Cancer[1]
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
You can also add sub-section(s) at will.
Labs working on this lncRNA
- Department of Molecular Virology, Immunology and Medical Genetics andDepartment of Anesthesiology, Wexner Medical Center, and Department of Neurological Surgery, The Ohio State University, Columbus, OH, 43210; [1].
- Department of Environmental Genomics, Jiangsu Key Laboratory of Cancer Biomarkers, Prevention and Treatment, Cancer Center, Nanjing Medical University, Nanjing, China; Department of Genetic Toxicology, The Key Laboratory of Modern Toxicology of Ministry of Education, School of Public Health, Nanjing Medical University, Nanjing, China[2].
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 Kim T, Cui R, Jeon YJ, Lee JH, Lee JH, Sim H, et al. Long-range interaction and correlation between MYC enhancer and oncogenic long noncoding RNA CARLo-5[J]. Proceedings of the National Academy of Sciences of the United States of America. 2014,111(11):4173-8
- ↑ 2.0 2.1 2.2 2.3 Ma G, Gu D, Lv C, Chu H, Xu Z, Tong N, et al. Genetic variant in 8q24 is associated with prognosis for gastric cancer in a Chinese population[J]. Journal of gastroenterology and hepatology.
Basic Information
| Transcript ID |
ENST00000502056.1 |
| Source |
Gencode19 |
| Same with |
lnc-TMEM75-3:1,NONHSAT129035,CASC8 |
| Classification |
intergenic |
| Length |
1412 nt |
| Genomic location |
chr8-:128455595..128494384 |
| Exon number |
5 |
| Exons |
128455595..128455965,128491328..128491415,128491949..128492051,128492973..128493316,128493879..128494384 |
| Genome context |
|
| Sequence |
000001 TGAACCACCC CAGGCCCTTT GCACCTGCTA TTCCCTCTCC TCAGCATGCT CTGCCCCAGA CAATTGCAAT GCTAACTTCT 000080
000081 TACTTCCTTC AGGTTTCACT CAGAAATGAC TTTCTCAGTG GGGTCTCCCA TGACCATTTT ATTTAAGATT TCAACTACTT 000160 000161 TGCCAGTATT TCACTTCTCC TCCCTTGATC TTTTCTTCCA AGCACTCACT GCCCTCTTGC ACACTGTATC TTTTACTTAT 000240 000241 TTATCTTGTT CAGTTTCTGC CTGCCTCACC TGCCTCACCA CAGTGTACAT TTCACGAGGG CAGGGATTTT GTCTGTTTTG 000320 000321 TTGATTGCTG TAGCCCTGGC ATCTTGGGCA GTGCCAGCAC CTGTTAGCAT TAAATACATA TTTACTGAAT GAATGAGTGG 000400 000401 CTTCATGCTT AAAAGCAAGA AGAGAGACCT TCATAGAGAA GTAGGAAAAT GAATTGTTGC ACAAATAAAG GGCCATGTAA 000480 000481 TGAGAGAGAG AGAGCAAGAG AAAGAGCAAA CAATTAAGGA GCAGCAGTGG CTTCCTGCAG GGGAGACCAA TGCCTTCTGT 000560 000561 CCTCAGCGGA AACAGCTTGG CATTCTTCCA ATTGATGAAT GGCATGGACC AGGAGCACTA GTTATCTTCA GCTTCTGAGC 000640 000641 ATCCGAATAA ATAAACATAC AAATGCATAA CATAAAATAA ATTCAAATTA CAAATGAGAA AACCAATCTA GGTTACCGGC 000720 000721 AAGTCCTATG ACTTGATGTG GAGGCCTGGA AGTGCATCCT TGAATCTTGC AATGCAGTGA GCCAAGGAGC AATGAGAGGC 000800 000801 CACATGAATA ACCGGGCCAG TGACAAGACA CATGTCCTCC TCCTTGCTGG TATACACCAG AATGCCCCGC ATGCAGCGAA 000880 000881 TGCTCAAAAA GTGTTGGTGG AAGTGACAGA ATTCCATCAC CATTAAACAC AACCAGTGTT GCGGTTGACA ATGGCACTGA 000960 000961 AGCAGGTGAA AAATCCGTAC AGCAGCTTCT GTCTTTGAAG AGTTTGCAGC CTCTTGAAGA GGGTTTAGAG GTTAAAAAAA 001040 001041 GGACCCAGGC TGATAGGGCC GCTACCATTT GGAAAGTGAC AAGAGGAAGA GAGAGAATGA AACAACAGTA AGCACTGGCT 001120 001121 CTCAGCTTCT ACCTGAAGAG ACAAACATTG CTTTCACTTA CATTTCACTG GCCAAATCAA GCCCATGGCA ACAATTGAGT 001200 001201 TCAAAAGCAT AAGGAGGTAT CTGGAAGGAA GAGAATCAGA AAATTTCTGA TGAGCCTCAC TGACTACCTT CAGGGCAAAA 001280 001281 AGGAAGAGAG GCACTCCAGA TCAGAGATCT GCATTGGAAA CTCCTTGAGA ACCAGAAGGG TATGCTGTAT TTTTGTAACT 001360 001361 GTGAGGAGCC CAGAAAGACT GAAGCCCAAA TAAAATTCCT TTATTCAATA TT |
