Difference between revisions of "ENST00000604200.1"
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''LINC00468'', "long intergenic non-protein coding RNA 468"<ref name="ref1" /> | ''LINC00468'', "long intergenic non-protein coding RNA 468"<ref name="ref1" /> | ||
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| + | ===Characteristics=== | ||
| + | CAHM located adjacent to the gene QKI, is hypermyethylated in colorectal neoplasia.<ref name="ref1" /> | ||
===Function=== | ===Function=== | ||
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The levels of hypermethylated CAHM of CRC patients were increased in blood than normals. Moreover, the increaseing levels of mythylated CAHM was correlated with advancing disease stage, which may act as a potential marker for CRC substypes. | The levels of hypermethylated CAHM of CRC patients were increased in blood than normals. Moreover, the increaseing levels of mythylated CAHM was correlated with advancing disease stage, which may act as a potential marker for CRC substypes. | ||
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===Expression=== | ===Expression=== | ||
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| + | ===Diseases=== | ||
| + | * colorectal adenocarcinoma<ref name ="ref1" /> | ||
Revision as of 14:01, 8 April 2015
CAHM,short for Colorectal Adenocarcinoma HyperMethylated, which is located about 730bp upstream of the adjacent gene, QKI, showed specially hypermethylated in colorectal neoplasia.
Contents
Annotated Information
Transcriptomic Nomeclature
CAHM: colon adenocarcinoma hypermethylated(non-protein coding)(HGNC nomenclature)
LINC00468, "long intergenic non-protein coding RNA 468"[1]
Characteristics
CAHM located adjacent to the gene QKI, is hypermyethylated in colorectal neoplasia.[1]
Function
CAHM showed specially hypermethylated in colorectal neoplasia compared with lung, prostate and breast cancer[1].
The levels of hypermethylated CAHM of CRC patients were increased in blood than normals. Moreover, the increaseing levels of mythylated CAHM was correlated with advancing disease stage, which may act as a potential marker for CRC substypes.
Expression
CAHM and its neighboring gene QKI were both downregulated in colorectal neoplasia because of hypermethylation, which suggests their high positive correlation.
| Input Material | Gene targets | Oligonucleotides |
|---|---|---|
| Deep Sequencing | ||
| BisDNA | CAHM | Region A
A1:5’-ATt TGT AAA AAT GTT GAt TTt TGt TTT TtA Gat-3’ A2:5’-TCT TaT TaC ACC TTC CCR TTA TTC Ta-3’[1] |
| CAHM | Region B
B1:5’-GtY GTG tTG tTT Ttt AGt tTt TtA GtA AAT t-3' B2:5’-CAC RaT aCR aAa aaC Taa Taa aCT TTC CTT a-3’[1] | |
| Bisulphite conversion dependent quantitative PCR | ||
| BisDNA | CAHM | (within Region A)
1:5’-GAA GGA AGt AAT TCG AGt ACG AtT GAC-3’ 2:5’-CCC gaA CGC AaC GaC TTA a-3’[1] |
| RNA expression | ||
| cDNA | CAHM | 2.1:5’-AGG GGA GCG TCA GTC GTG CT-3 ’
2.2:5’-TGC GGC TTC ATT CCC TCA CGG-3’[1] |
Diseases
- colorectal adenocarcinoma[1]
Labs working on this lncRNA
- Clinical Genomics Pty Ltd; North Ryde, NSW Australia.[1].
References
Basic Information
| Transcript ID |
ENST00000604200.1 |
| Source |
Gencode19 |
| Same with |
CAHM ,LINC00468 |
| Classification |
intergenic |
| Length |
896 nt |
| Genomic location |
chr6-:163834097..163834992 |
| Exon number |
1 |
| Exons |
163834097..163834992 |
| Genome context |
|
| Sequence |
000001 CCCCGGAGCG CGCCTGCGTG GGGCGGGGGC GGCAGCCGAC TAGGGGCTGG GTCTGGCCGT TTAGGGCCGG GTCTTGGCCC 000080
000081 GTCGCCCACG GTGCGGAGGG CTGGTGGGCT TTCCTTGGCC GTCGGGCCCG CCACGGCGCG GGTCTTGGCT GCGGGGCGGA 000160 000161 GGTGGGGCGG GAGAGCCGAG GATAAGAGTT TGAGGCTTTT CGAGGCGCGT GCCGCGGCGT CCGCCTCTGC GGGACTCTGC 000240 000241 GCCGGGCGCC CTCGGCCGGC GCGCCCGGCT CCCGCTTTGT CGCCGAGGGA AGCACGCGCG ACGCCCCTCC CGTCGCCGCC 000320 000321 GTGGCTTCTT TCGGTGTTCG TGATTTGCTG AGAGGCTGGA AAGCAGCACG GCGGAGAGGA GCCTTGCACT CGCCAGGCGG 000400 000401 GAAGCCTGCG CGGACACGCG TGCGCACCCA CGGGGCGGCG GGCGGGCGTG GGGGGTCCGG GCCACGCGGG CGACGCGCCT 000480 000481 CTAGGGAAGC GATCTTGTTG CACCTTCCCG TTATTCTGAA AGCAAATCGT AGCCAGACCC GAGCGCAGCG GCTTAGCAAA 000560 000561 TAATAAGGGG AGCGTCAGTC GTGCTCGAAA TGCTTCCTTC GCGATGGCGT CAGTGTTCCG TGAGGGAATG AAGCCGCAGT 000640 000641 AGGAAATAAA GAGGCTGTGC GCGTAGTCTG AAAAGCAGAA GTCAACATTT TTACAGATGA AGAAAGAATA CGGAGGCAAG 000720 000721 AGGTCTTTCT CTGCAGTTTG GTGGATTTCC AACATTTAGA CTTGTTTGGA AGAATTTCCT CAGCTGCACC AATGAAGTCC 000800 000801 TTGATCTATA GAAGTCGGCA GTCCCTAAAT CTACGTCTGC ATTTTGTTGC AAATCCTTTA TAACATTCCA TTAAAATAAT 000880 000881 GCAGAGTTAT TTAATA |
