Difference between revisions of "MDC1-AS1"
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===Approved Name=== | ===Approved Name=== | ||
MDC1 antisense RNA 1 | MDC1 antisense RNA 1 | ||
| − | |||
| − | |||
===Synonyms=== | ===Synonyms=== | ||
MDC1-AS | MDC1-AS | ||
| Line 12: | Line 10: | ||
===RefSeq ID=== | ===RefSeq ID=== | ||
NR_133647 | NR_133647 | ||
| − | === | + | ===Cellular Localization=== |
| − | bladder cancer | + | MDC1-AS and MDC1 were exist primarily in the nuclear fraction <ref name="ref1" />. |
| + | |||
| + | ===Function=== | ||
| + | [[File:Malat1_splicing.jpg|right|thumb|200px|'''Hypothetical model depicting the role of MALAT1 in AS (alternative splicing) regulation in normal cells (Ea) and MALAT1-depleted cells (Eb)''' <ref name="ref1" />.]] | ||
| + | |||
| + | MDC1-AS, which may participate in bladder cancer through up-regulation of its antisense tumor-suppressing gene MDC1 <ref name=”ref1” /> | ||
| + | |||
| + | ===Expression=== | ||
| + | [[File:Dysregulation of MDC1-AS and MDC1 expression level.jpg|right|thumb|200px|''Dysregulation of MDC1-AS and MDC1 expression level''' <ref name="ref1" />.]] | ||
| + | |||
| + | The expression levels of MDC1-AS was down-regulated in bladder cancer <ref name="ref1" />. | ||
| + | |||
| + | There is a remarkably inhibitory role of antisense lncRNA MDC1-AS on malignant cell behaviors in bladder cancer cells EJ and T24, which knockdown of MDC1 revealed that suppressing role of MDC1-AS was attributed to up-regulation of MDC1 <ref name="ref1" />. | ||
| + | |||
| + | {| class='wikitable' style="text-align:center" | ||
| + | |- | ||
| + | ! | Experiment | ||
| + | ! | Primer | ||
| + | ! | Forward primer | ||
| + | ! | Reverse primer | ||
| + | |- | ||
| + | | rowspan="3"|RT-PCR | ||
| + | | | MDC1-AS | ||
| + | | | 5'-TCCCAGATGTGCCAAAGTCAG-3' | ||
| + | | | 5'-AGCAACCCCAGTTGTCATTC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | | MDC1 | ||
| + | | | 5'-GCAGCTTCCAGACAACAG-3' | ||
| + | | | 5'-TACCCATGACTTTATCCACA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | | GAPDH | ||
| + | | | 5'-AAGGTGAAGGTCGGAGTCAAC-3' | ||
| + | | | 5'-GGGGTCATTGATGGCAACAATA-3’ <ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|RNAi | ||
| + | | | siMDC1 | ||
| + | | | 5'-GCGGCUACAUAUCUUUAGUTT-3' | ||
| + | | | 5'-ACUAAAGAUAUGUAGCCGCTT-3'<ref name="ref1" /> | ||
| + | |} | ||
| + | |||
| + | ===Diseases=== | ||
| + | MDC1-AS may act as a tumor suppressor in bladder cancer <ref name="ref1" />. | ||
| + | |||
| + | ==Labs working on this lncRNA== | ||
| + | * Department of Environmental Genomics, Jiangsu Key Laboratory of Cancer Biomarkers, Prevention and Treatment, Cancer Center, Nanjing Medical University, Nanjing, China | ||
| + | |||
| + | ==References== | ||
| + | <references> | ||
| + | <ref name="ref1">Ji, P., Diederichs, S., Wang, W., Boing, S., Metzger, R., Schneider, P.M., Tidow, N., Brandt, B., Buerger, H., Bulk, E. et al. (2003) MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer. Oncogene, 22, 8031-8041.</ref> | ||
| + | |||
| + | </references> | ||
===Ensembl ID=== | ===Ensembl ID=== | ||
ENSG00000224328 | ENSG00000224328 | ||
Revision as of 03:01, 5 September 2016
Contents
Annotated Information
Approved Symbol
MDC1-AS1
Approved Name
MDC1 antisense RNA 1
Synonyms
MDC1-AS
Chromosome
6p21.33
RefSeq ID
NR_133647
Cellular Localization
MDC1-AS and MDC1 were exist primarily in the nuclear fraction [1].
Function
Hypothetical model depicting the role of MALAT1 in AS (alternative splicing) regulation in normal cells (Ea) and MALAT1-depleted cells (Eb) [1].
MDC1-AS, which may participate in bladder cancer through up-regulation of its antisense tumor-suppressing gene MDC1 [2]
Expression
Dysregulation of MDC1-AS and MDC1 expression level' [1].
The expression levels of MDC1-AS was down-regulated in bladder cancer [1].
There is a remarkably inhibitory role of antisense lncRNA MDC1-AS on malignant cell behaviors in bladder cancer cells EJ and T24, which knockdown of MDC1 revealed that suppressing role of MDC1-AS was attributed to up-regulation of MDC1 [1].
| Experiment | Primer | Forward primer | Reverse primer |
|---|---|---|---|
| RT-PCR | MDC1-AS | 5'-TCCCAGATGTGCCAAAGTCAG-3' | 5'-AGCAACCCCAGTTGTCATTC-3'[1] |
| MDC1 | 5'-GCAGCTTCCAGACAACAG-3' | 5'-TACCCATGACTTTATCCACA-3'[1] | |
| GAPDH | 5'-AAGGTGAAGGTCGGAGTCAAC-3' | 5'-GGGGTCATTGATGGCAACAATA-3’ [1] | |
| RNAi | siMDC1 | 5'-GCGGCUACAUAUCUUUAGUTT-3' | 5'-ACUAAAGAUAUGUAGCCGCTT-3'[1] |
Diseases
MDC1-AS may act as a tumor suppressor in bladder cancer [1].
Labs working on this lncRNA
- Department of Environmental Genomics, Jiangsu Key Laboratory of Cancer Biomarkers, Prevention and Treatment, Cancer Center, Nanjing Medical University, Nanjing, China
References
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Ji, P., Diederichs, S., Wang, W., Boing, S., Metzger, R., Schneider, P.M., Tidow, N., Brandt, B., Buerger, H., Bulk, E. et al. (2003) MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer. Oncogene, 22, 8031-8041.
- ↑ Cite error: Invalid
<ref>tag; no text was provided for refs named.E2.80.9Dref1.E2.80.9D
Ensembl ID
ENSG00000224328
pubmed IDs
25514464
Sequence
>gi|949474747|ref|NR_133647.1| Homo sapiens MDC1 antisense RNA 1 (MDC1-AS1), long non-coding RNA
000001 CACTATATCG GTCTGTCATC ATCCCTTGGC CTCTCACCTG ATGCAGCCAG TCCAGGGACA GAATGGGGAT TCCCCGCCCC 000080
000081 AGGGCACACA GGAACTTGAC TGTCCGGCGG ATGCGATCAG TGACCAGACA CCTGATGCTT CTTTATATGT ATAATGGCTG 000160
000161 ACCCTGGCGG GACTTCCTTC TCCACTTGTG TGTTGATGTC CACTGTGGTG GAGGCTTGGC TTCTCTCCAG GTGGATCCCA 000240
000241 GATGTGCCAA AGTCAGCGCT GCTGAGACTT CTTCCTCGTC ATCTGTATCG CTGTTGATAA CCATGGAAGC TTGGCTTTTC 000320
000321 TCCAGAGGGA CAGCCTGTGG GGCCTTGCCT TCTTCCACAT CTGTATCACT ACCAGCCTGG CTCTCCTGCA GATGGGCCAG 000400
000401 GCCTGGTGCT CCAGGACCCC TTGTACCTAC TCCATGGAAG ATCTTCCTCT TCTTCATAGG AATGACAACT GGGGTTGCTG 000480
000481 GGATCCTCTC TTCTTCCGCA TCAGTGTCGC TGTCGATGAA GCCAAAAGGC TGAGCCCTTT CCAAATGGAC CTCAGCTGGC 000560
000561 CTTCCAGGAG GCCTGCTGTC ATCATCCACA TCTGTGTCAC TGTCCTCTCC AGGAGGTTGG CTCCTCTCCA GAATCACCCC 000640
000641 AGCTGGAACC ACCCCATTCC CTGCACCCCT CTTGACTTTT GTATCATTGT CCCTCTCCTT CACTAAAGGC TGATCCTTTT 000720
000721 CAAGCTGGAT TTCAGTTA
000081 AGGGCACACA GGAACTTGAC TGTCCGGCGG ATGCGATCAG TGACCAGACA CCTGATGCTT CTTTATATGT ATAATGGCTG 000160
000161 ACCCTGGCGG GACTTCCTTC TCCACTTGTG TGTTGATGTC CACTGTGGTG GAGGCTTGGC TTCTCTCCAG GTGGATCCCA 000240
000241 GATGTGCCAA AGTCAGCGCT GCTGAGACTT CTTCCTCGTC ATCTGTATCG CTGTTGATAA CCATGGAAGC TTGGCTTTTC 000320
000321 TCCAGAGGGA CAGCCTGTGG GGCCTTGCCT TCTTCCACAT CTGTATCACT ACCAGCCTGG CTCTCCTGCA GATGGGCCAG 000400
000401 GCCTGGTGCT CCAGGACCCC TTGTACCTAC TCCATGGAAG ATCTTCCTCT TCTTCATAGG AATGACAACT GGGGTTGCTG 000480
000481 GGATCCTCTC TTCTTCCGCA TCAGTGTCGC TGTCGATGAA GCCAAAAGGC TGAGCCCTTT CCAAATGGAC CTCAGCTGGC 000560
000561 CTTCCAGGAG GCCTGCTGTC ATCATCCACA TCTGTGTCAC TGTCCTCTCC AGGAGGTTGG CTCCTCTCCA GAATCACCCC 000640
000641 AGCTGGAACC ACCCCATTCC CTGCACCCCT CTTGACTTTT GTATCATTGT CCCTCTCCTT CACTAAAGGC TGATCCTTTT 000720
000721 CAAGCTGGAT TTCAGTTA
Predicted Small Protein
| Name | MDC1-AS1_smProtein_302:532 |
| Length | 76 |
| Molecular weight | 7927.2718 |
| Aromaticity | 0.105263157895 |
| Instability index | 48.4697368421 |
| Isoelectric point | 10.3208618164 |
| Runs | 14 |
| Runs residual | 0.0428009679371 |
| Runs probability | 0.0466033260151 |
| Amino acid sequence | MEAWLFSRGTACGALPSSTSVSLPAWLSCRWARPGAPGPLVPTPWKIFLFFIGMTTGVAG ILSSSASVSLSMKPKG |
| Secondary structure | LEEEEELLLEELLLLLLLLLLLLHHHHLLLLLLLLLLLLLLLLLLEEEEEEELLLLLHHH EEELLLEEEEEEELLL |
| PRMN | LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLHHHHHHHHHHHHHHHHHH HHLLLLLLLLLLLLLL |
| PiMo | ooooooooooooooooooooooooooooooooooooooooooTTTTTTTTTTTTTTTTTT TTiiiiiiiiiiiiii |
