Difference between revisions of "AFDN-DT"
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| − | + | AFDN-DT, an lncRNA that is repressed in gastric cancers (GC), functions as a tumour suppressor by inhibiting cell growth and metastasis through transcriptional repression of genes involved in metastasis and DNA hypermethylation could repress AFDN-DT expression. | |
==Annotated Information== | ==Annotated Information== | ||
===Name=== | ===Name=== | ||
| − | + | Approved symbol:AFDN-DT | |
| + | |||
| + | Approved name:AFDN divergent transcript | ||
| + | |||
| + | HGNC ID：21236 | ||
| + | |||
| + | Previous name:chromosome 6 open reading frame 124|MLLT4 antisense RNA 1 (non-protein coding)|MLLT4 antisense RNA 1 (head to head)|AFDN antisense RNA 1 (head to head) | ||
| + | |||
| + | Previous symbol:C6orf124|MLLT4-AS1|AFDN-AS1 | ||
| + | |||
| + | Alias symbol:HGC6.4|dJ431P23.3 | ||
| + | |||
| + | RefSeq ID:NR_027906 | ||
===Characteristics=== | ===Characteristics=== | ||
| − | + | AFDN-DT is two exon transcript of 2311 bp (GenBank) long non-coding RNA, located on human chromosome 6q27 <ref name="ref1" />.2.2 kb; spliced, polyadenylated and comprised of 6 exons in humans <ref name="ref1" />. | |
===Function=== | ===Function=== | ||
| Line 12: | Line 24: | ||
===Expression=== | ===Expression=== | ||
| + | DNA hypermethylation could repress AFDN-DT expression.<ref name="ref3" /> | ||
| + | |||
[[File:AFDN-DT.jpg|right|thumb|400px|'''Overall survival curves of patients with gastric cancer according to ''AFDN-DT'' expression levels.''' <ref name="ref1" />]] | [[File:AFDN-DT.jpg|right|thumb|400px|'''Overall survival curves of patients with gastric cancer according to ''AFDN-DT'' expression levels.''' <ref name="ref1" />]] | ||
| − | + | AFDN-DT is significantly downregulated in gastric cancer tissue compared with normal adjacent tissue <ref name="ref1" />. | |
{| class='wikitable' style="text-align:center" | {| class='wikitable' style="text-align:center" | ||
| Line 30: | Line 44: | ||
===Diseases=== | ===Diseases=== | ||
| − | + | Gastric cancer <ref name="ref1" /> | |
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| − | + | Department of Gastroenterology, Shanghai Songjiang Hospital Affiliated to Nanjing Medical University, Shanghai 201600, P.R. China.<ref name="ref1" /><ref name="ref3" />. | |
| − | + | ||
| + | Department of Digestive Diseases, Huashan Hospital, Fudan University, Shanghai 200040, P.R. China.<ref name="ref1" /> | ||
| + | |||
| + | Laboratory of Molecular Medicine, Human Genome Center, Institute of Medical Science, University of Tokyo, Japan.<ref name="ref2" /> | ||
| + | |||
| + | Department of Gastroenterology, Songjiang Hospital Affiliated to Shanghai Jiaotong University School of Medicine (Preparatory Stage), Shanghai, China. | ||
| + | <ref name="ref3" />. | ||
| + | Department of Central laboratory, Songjiang Hospital Affiliated to Shanghai Jiaotong University School of Medicine (Preparatory Stage), Shanghai, China.<ref name="ref3" />. | ||
==References== | ==References== | ||
<references> | <references> | ||
| − | <ref name="ref1">Lai YX, Xu P, Liu J, Li QH, Ren DB, Zhang J et al. Decreased expression of the long non-coding RNA MLLT4 antisense RNA 1 is a potential biomarker and an indicator of a poor prognosis for gastric cancer[J]. Oncol Lett. 2017, 14(3):2629-2634. | + | <ref name="ref1">Lai YX, Xu P, Liu J, Li QH, Ren DB, Zhang J et al. Decreased expression of the long non-coding RNA MLLT4 antisense RNA 1 is a potential biomarker and an indicator of a poor prognosis for gastric cancer[J]. Oncol Lett. 2017, 14(3):2629-2634.</ref> |
| − | </ref>( | + | |
| + | <ref name="ref2">Minaguchi T, Matsushima M, Saito S, Kanamori Y, Shirahama S, Okamoto S, Minami M, Taketani Y, Nakamura Y. Complete DNA sequence and characterization of a 330-kb VNTR-rich region on chromosome 6q27 that is commonly deleted in ovarian cancer. DNA Res. 1999 Apr 30;6(2):131-6. doi: 10.1093/dnares/6.2.131. </ref> | ||
| + | |||
| + | <ref name="ref3">Lai Y, Xu P, Wang J, Xu K, Wang L, Meng Y. Tumour suppressive long non-coding RNA AFDN-DT inhibits gastric cancer invasion via transcriptional regulation. J Cell Mol Med. 2020 Mar;24(5):3157-3166. doi: 10.1111/jcmm.14988. Epub 2020 Jan 24. </ref> | ||
</references> | </references> | ||
Latest revision as of 10:21, 19 February 2021
AFDN-DT, an lncRNA that is repressed in gastric cancers (GC), functions as a tumour suppressor by inhibiting cell growth and metastasis through transcriptional repression of genes involved in metastasis and DNA hypermethylation could repress AFDN-DT expression.
Contents
Annotated Information
Name
Approved symbol:AFDN-DT
Approved name:AFDN divergent transcript
HGNC ID：21236
Previous name:chromosome 6 open reading frame 124|MLLT4 antisense RNA 1 (non-protein coding)|MLLT4 antisense RNA 1 (head to head)|AFDN antisense RNA 1 (head to head)
Previous symbol:C6orf124|MLLT4-AS1|AFDN-AS1
Alias symbol:HGC6.4|dJ431P23.3
RefSeq ID:NR_027906
Characteristics
AFDN-DT is two exon transcript of 2311 bp (GenBank) long non-coding RNA, located on human chromosome 6q27 [1].2.2 kb; spliced, polyadenylated and comprised of 6 exons in humans [1].
Function
Decreased expression of AFDN-DT is associated with a poor prognosis in gastric cancer [1].
Expression
DNA hypermethylation could repress AFDN-DT expression.[2]
Overall survival curves of patients with gastric cancer according to AFDN-DT expression levels. [1]
AFDN-DT is significantly downregulated in gastric cancer tissue compared with normal adjacent tissue [1].
| Experiment | Forward primer | Reverse primer |
|---|---|---|
| qRT-PCR | 5′-TGCTGTGCGGTGTTCCTCTC-3′ | 5′-CGAAGAATTGGCAGATAACGATGT-3′[1] |
Regulation
Please input information here.
Diseases
Gastric cancer [1]
Labs working on this lncRNA
Department of Gastroenterology, Shanghai Songjiang Hospital Affiliated to Nanjing Medical University, Shanghai 201600, P.R. China.[1][2].
Department of Digestive Diseases, Huashan Hospital, Fudan University, Shanghai 200040, P.R. China.[1]
Laboratory of Molecular Medicine, Human Genome Center, Institute of Medical Science, University of Tokyo, Japan.[3]
Department of Gastroenterology, Songjiang Hospital Affiliated to Shanghai Jiaotong University School of Medicine (Preparatory Stage), Shanghai, China. [2].
Department of Central laboratory, Songjiang Hospital Affiliated to Shanghai Jiaotong University School of Medicine (Preparatory Stage), Shanghai, China.[2].
References
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 Lai YX, Xu P, Liu J, Li QH, Ren DB, Zhang J et al. Decreased expression of the long non-coding RNA MLLT4 antisense RNA 1 is a potential biomarker and an indicator of a poor prognosis for gastric cancer[J]. Oncol Lett. 2017, 14(3):2629-2634.
- ↑ 2.0 2.1 2.2 2.3 Lai Y, Xu P, Wang J, Xu K, Wang L, Meng Y. Tumour suppressive long non-coding RNA AFDN-DT inhibits gastric cancer invasion via transcriptional regulation. J Cell Mol Med. 2020 Mar;24(5):3157-3166. doi: 10.1111/jcmm.14988. Epub 2020 Jan 24.
- ↑ Minaguchi T, Matsushima M, Saito S, Kanamori Y, Shirahama S, Okamoto S, Minami M, Taketani Y, Nakamura Y. Complete DNA sequence and characterization of a 330-kb VNTR-rich region on chromosome 6q27 that is commonly deleted in ovarian cancer. DNA Res. 1999 Apr 30;6(2):131-6. doi: 10.1093/dnares/6.2.131.
Sequence
>gi|653483|ref|NR_027906.1|Homo sapiens AFDN divergent transcript (AFDN-DT), long non-coding RNA
000001 GCTCCACTAG GTGCTGCTGC CGCGGCCGCC AGGGAGGGAG GTGTCGGAGG GCGGGCCCCG CGCGGTGCTA GGGTTCCGTC 000080
000081 TGGACTGGCG GTGGTGGGTC CCAACCGGCG GTACCGGGTT CCTTCCCGAC CAGCGGTGCT AGGTTCGGTT CGGACGCGCG 000160
000161 CTGCTGGATC TAAATGGGCA GTGCTGGGTC CGATGGGTGG TGCTGTGTTG GGTCCGGACG CGCGGTGCAG AGTCCGGACG 000240
000241 GGCGGTGCTG GATCCAAATG GGCGGTGCTG GATCTGGACG GGCGGTGATG GGTCCGATGG GCGGTGCTAT GTTCGGTTCG 000320
000321 GACGGGCGGT GCTAGGTCTA AATGGGCGCT GCTGGGTCCG ATGGGCGGTG CTGCGTTCGG TCCGGACGGG CGGGGACGGG 000400
000401 CGGTGCTGGG TCCAAATGGG TGGTGATGGA TCTGTGGACG GGCGGTGCTG GTTCCAGACG GGCGGTGCTG GGTCCAGACG 000480
000481 GGCGGTGGGT CCGATGGGCG GTGCTAGGTT CGGTTCGGAT GGGTGGTGCT AGGTCTAAAT GGGCGGCGCC GGATCCGATG 000560
000561 GGCGGTGCTG GGTTCGGTCC GGACTGGCGG GTCCGGGTCT GGACGGGCGG TGCTGGATCC AAATGGGGGT GCAGTGCTGG 000640
000641 ATCTGGACGG GCGGTGCTGG GTCCGAACGG GCGATGGGTC CCATGGGCGG TGCTAGGTTC GGTTCGGACT GGCGGTGCTG 000720
000721 GGTCTAAATG GGCGGCGCTG GGTCCGATGG GTGGTACTGG GTCCGGACGG GCGGTTCTGG GTCTGGACGG GCGGTGCAGT 000800
000801 ATCCAAATGG GCGCTGCTGG GTCCGGACGG GCGGTGCTAG GTTCGGTCCG GACGGGTGGT GCTGGGTCTA AATGGGCGGT 000880
000881 GCTAGGCTCA GCAGGGGACC GGTGGGCGTG GCGGCACAGG TACGGAGCGC AGGGCCGGTG GAGCGCCCTC TCCGAAGGGC 000960
000961 CCTGCGCTCC CCGCGCTCGC TGCTCCTCCT GCCCGCGCAT TGCCCCGGGG CTGCTGCGTG TTTCTTCCAG GGTGATTCCT 001040
001041 TTCCGCTGGG TCACTTCAAA GCCGACCTTT TCAAGCTGTT TTCTTCCGCG GAGGACACGT TGTTAGGCTT TGTGTGCATT 001120
001121 TCAAGGGTCA TGTTTTCTGA ACCGCGCTCT GCCGCTCTTG GGGTGTTCGA GCCCCCACAC TGCTGTGCGG TGTTCCTCTC 001200
001201 ACAGAGTGAG GTTGGAGGGT CCCACTCCCT TTGTGTGTCT CCTTAGAAAA CGCCTCTTCT CTCAGACACA TCGTTATCTG 001280
001281 CCAATTCTTC GCAGACGTAG AGAACGGACT GCAGAGTTAA TAAACGTCGA GGGGAAGCTT TGATGCGCCC CATTTGGCCC 001360
001361 TGAGAGATGC CACGTGATCG TCATTTTAAA TCCTTTCCTG GGCTTCCCGA TGGACTCGAG TTTTTACTAT GTGAGCATCC 001440
001441 CGGTGCCTGC ACAGCAAGGA CTCTCATTGG GTTCCACACG TGCTGCGCAG ATCCCTGACG CAGCGTTCAC TGAACCTCAA 001520
001521 CTGCAGGAGC TTCATTCCTG AGGACGCTGT TACCAAGAAT GACTTGCCTC TTGAAGAATG AGTTTGCAAA GCCGGCAGTT 001600
001601 AGATTGCTGA TGTCCAAAGT AAGTATGTGT AGCATCACTA AAGAGAAAAT TCAGGATTCC TGGAAAACAG TTATGGGCTC 001680
001681 TCTGCAGTGT TATTTTTGTA ATAAAAAACA TATAGCATAT GTGAAATACC TACTGGGTGA TGCAGGACAC ATAGAAGGCT 001760
001761 CGAAATTAAT GTGAATCATT CTCGTTTTTC TGACTGTCAT TAAAAGTCCC CATTTGTATT ATGTATGAGT GGTATATCAA 001840
001841 TATCTAAACT ACACTTTATT GTAGGTCCCA ACCAACATTA GTTTATTGAC AAATGTTTAA GAGCAGCCAA AAATTCATAG 001920
001921 AATACCTATG ATTCTTAAAT CATGAACACT CCCATAACTG GTATATGTTT AGGACATGAA AATTTCCAGG CTGACAAATA 002000
002001 ATTTCGCTGT CATCGGTCAA GACTCCAGGA TGATATTCTG AGCCATATGT TAATTTTGAT AACCACCTAG AACAATAAAA 002080
002081 GGTAAACATG CTACCATCTT CTATTCTCAT TGCACCACTG GATTCTGGTA CATCTAAAAA TTGTACTTAA ATGATATCCA 002160
002161 AGAAATGCTG TAAAAAACAA AATAGGGCCG GGCGCAGTGG CTCACACCTG TAATCCCAGC ATTTTGGGAG GCCAAGGCGG 002240
002241 GCAGATCACG AGGTCAGGAG ATCAAGACCA TCCTGGCTAA CACGGTGAAA CCCCGTCTCT ACTAAAAATA C
000081 TGGACTGGCG GTGGTGGGTC CCAACCGGCG GTACCGGGTT CCTTCCCGAC CAGCGGTGCT AGGTTCGGTT CGGACGCGCG 000160
000161 CTGCTGGATC TAAATGGGCA GTGCTGGGTC CGATGGGTGG TGCTGTGTTG GGTCCGGACG CGCGGTGCAG AGTCCGGACG 000240
000241 GGCGGTGCTG GATCCAAATG GGCGGTGCTG GATCTGGACG GGCGGTGATG GGTCCGATGG GCGGTGCTAT GTTCGGTTCG 000320
000321 GACGGGCGGT GCTAGGTCTA AATGGGCGCT GCTGGGTCCG ATGGGCGGTG CTGCGTTCGG TCCGGACGGG CGGGGACGGG 000400
000401 CGGTGCTGGG TCCAAATGGG TGGTGATGGA TCTGTGGACG GGCGGTGCTG GTTCCAGACG GGCGGTGCTG GGTCCAGACG 000480
000481 GGCGGTGGGT CCGATGGGCG GTGCTAGGTT CGGTTCGGAT GGGTGGTGCT AGGTCTAAAT GGGCGGCGCC GGATCCGATG 000560
000561 GGCGGTGCTG GGTTCGGTCC GGACTGGCGG GTCCGGGTCT GGACGGGCGG TGCTGGATCC AAATGGGGGT GCAGTGCTGG 000640
000641 ATCTGGACGG GCGGTGCTGG GTCCGAACGG GCGATGGGTC CCATGGGCGG TGCTAGGTTC GGTTCGGACT GGCGGTGCTG 000720
000721 GGTCTAAATG GGCGGCGCTG GGTCCGATGG GTGGTACTGG GTCCGGACGG GCGGTTCTGG GTCTGGACGG GCGGTGCAGT 000800
000801 ATCCAAATGG GCGCTGCTGG GTCCGGACGG GCGGTGCTAG GTTCGGTCCG GACGGGTGGT GCTGGGTCTA AATGGGCGGT 000880
000881 GCTAGGCTCA GCAGGGGACC GGTGGGCGTG GCGGCACAGG TACGGAGCGC AGGGCCGGTG GAGCGCCCTC TCCGAAGGGC 000960
000961 CCTGCGCTCC CCGCGCTCGC TGCTCCTCCT GCCCGCGCAT TGCCCCGGGG CTGCTGCGTG TTTCTTCCAG GGTGATTCCT 001040
001041 TTCCGCTGGG TCACTTCAAA GCCGACCTTT TCAAGCTGTT TTCTTCCGCG GAGGACACGT TGTTAGGCTT TGTGTGCATT 001120
001121 TCAAGGGTCA TGTTTTCTGA ACCGCGCTCT GCCGCTCTTG GGGTGTTCGA GCCCCCACAC TGCTGTGCGG TGTTCCTCTC 001200
001201 ACAGAGTGAG GTTGGAGGGT CCCACTCCCT TTGTGTGTCT CCTTAGAAAA CGCCTCTTCT CTCAGACACA TCGTTATCTG 001280
001281 CCAATTCTTC GCAGACGTAG AGAACGGACT GCAGAGTTAA TAAACGTCGA GGGGAAGCTT TGATGCGCCC CATTTGGCCC 001360
001361 TGAGAGATGC CACGTGATCG TCATTTTAAA TCCTTTCCTG GGCTTCCCGA TGGACTCGAG TTTTTACTAT GTGAGCATCC 001440
001441 CGGTGCCTGC ACAGCAAGGA CTCTCATTGG GTTCCACACG TGCTGCGCAG ATCCCTGACG CAGCGTTCAC TGAACCTCAA 001520
001521 CTGCAGGAGC TTCATTCCTG AGGACGCTGT TACCAAGAAT GACTTGCCTC TTGAAGAATG AGTTTGCAAA GCCGGCAGTT 001600
001601 AGATTGCTGA TGTCCAAAGT AAGTATGTGT AGCATCACTA AAGAGAAAAT TCAGGATTCC TGGAAAACAG TTATGGGCTC 001680
001681 TCTGCAGTGT TATTTTTGTA ATAAAAAACA TATAGCATAT GTGAAATACC TACTGGGTGA TGCAGGACAC ATAGAAGGCT 001760
001761 CGAAATTAAT GTGAATCATT CTCGTTTTTC TGACTGTCAT TAAAAGTCCC CATTTGTATT ATGTATGAGT GGTATATCAA 001840
001841 TATCTAAACT ACACTTTATT GTAGGTCCCA ACCAACATTA GTTTATTGAC AAATGTTTAA GAGCAGCCAA AAATTCATAG 001920
001921 AATACCTATG ATTCTTAAAT CATGAACACT CCCATAACTG GTATATGTTT AGGACATGAA AATTTCCAGG CTGACAAATA 002000
002001 ATTTCGCTGT CATCGGTCAA GACTCCAGGA TGATATTCTG AGCCATATGT TAATTTTGAT AACCACCTAG AACAATAAAA 002080
002081 GGTAAACATG CTACCATCTT CTATTCTCAT TGCACCACTG GATTCTGGTA CATCTAAAAA TTGTACTTAA ATGATATCCA 002160
002161 AGAAATGCTG TAAAAAACAA AATAGGGCCG GGCGCAGTGG CTCACACCTG TAATCCCAGC ATTTTGGGAG GCCAAGGCGG 002240
002241 GCAGATCACG AGGTCAGGAG ATCAAGACCA TCCTGGCTAA CACGGTGAAA CCCCGTCTCT ACTAAAAATA C
