Difference between revisions of "CASC15"

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(Created page with "==Annotated Information== ===Approved Symbol=== CASC15 ===Approved Name=== cancer susceptibility candidate 15 (non-protein coding) ===Previous Symbols=== LINC00340 ===Synonyms...")
 
 
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==Annotated Information==
 
==Annotated Information==
 
===Approved Symbol===
 
===Approved Symbol===
−
CASC15
+
CASC15: cancer susceptibility candidate 15 (non-protein coding)
−
===Approved Name===
 
−
cancer susceptibility candidate 15 (non-protein coding)
 
 
===Previous Symbols===
 
===Previous Symbols===
 
LINC00340
 
LINC00340
−
===Synonyms===
 
−
_
 
 
===Chromosome===
 
===Chromosome===
 
6p22.3
 
6p22.3
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===Ensembl ID===
 
===Ensembl ID===
 
ENSG00000272168
 
ENSG00000272168
−
===pubmed IDs===
+
===Characteristics===
−
26016895, 26100672
+
The CASC15 intergenic locus (NCBI Gene ID: 401237), formerly known as the LINC00340 or FLJ22536locus, spans ~530 kilobases (kb) between the SOX4 and PRL genes on chromosome 6p22.3. <ref name="ref1" />
 +
 
 +
===Function===
 +
CASC15 regulates melanoma cell phenotype switching between proliferative and invasive state. <ref name="ref1" />
 +
 
 +
CASC15 levels correlated with known gene signatures corresponding to melanoma proliferative and invasive phenotypes.<ref name="ref1" />
 +
===Expression===
 +
[[File: CASC15 expression in melanoma specimens..jpg|right|thumb|400px|'''CASC15 expression in melanoma specimens.''' <ref name="ref1" />.]]
 +
 
 +
CASC15 RNA is expressed in melanoma lines and up-regulated in a xenograft model of melanoma brain metastasis.<ref name="ref1" />
 +
 
 +
{| class='wikitable' style="text-align:center"
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|-
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! | Experiment
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! | Primer
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! | Forward primer
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! | Reverse primer
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|-
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| rowspan="7"|q-PCR
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| | CASC15 Exons 1-2
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| | 5'- TGCGACGAAGTGGGGAAG-3'
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| | 5'- CCAGTAAGAACAACGCAGAATGA-3'<ref name="ref1" />
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|-
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| | CASC15 Exons 4-5
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| | 5'-AAGCTCATTTCACTGGTGG-3'
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| | 5'-GCAGTAAATCACTGTCTTTCAC-3'<ref name="ref1" />
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|-
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| | CASC15 Exons 4-5
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| | 5'-AAGCTCATTTCACTGGTGG-3'
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| | 5'-GCAGTAAATCACTGTCTTTCAC-3'<ref name="ref1" />
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|-
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| | CASC15 Exons 1b-5
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| | 5’-TCATTCCATTGAGCCATT-3'
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| | 5'-GCAGTAAATCACTGTCTTTCAC-3'<ref name="ref1" />
 +
|-
 +
| | CASC15 Exons 8
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| | 5’-CCAAGAGGAATCCAGCAAAG-3'
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| | 5'-TGGCTCTCTTCTTCCCATTG-3'<ref name="ref1" />
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|-
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| | CASC15 Exons 10-11
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| | 5’-TGGACTTTTGGGTTAAGTTC-3'
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| | 5'-CAGAAGCAAGGAGACACAGT-3'<ref name="ref1" />
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|-
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| | CASC15 Exons 11-12
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| | 5’-CTGTGTCTCCTTGCTTCTGA-3'
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| | 5'-GGTAGGGGACTCCTTTCTCT-3'<ref name="ref1" />
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|-
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| rowspan="8"|Knockdown
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| rowspan="4"|siPool1
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| | Sense
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| | GATTTACTTCCTTCCCTTT <ref name="ref1" />
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|-
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| | Sense
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| | GAGTCACTCCATTATTCTT <ref name="ref1" />
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|-
 +
| | Sense
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| | GTGTGACTGCCAAGAGGAA<ref name="ref1" />
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|-
 +
| | Sense
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| | CAAGAAGAGTATGCAGAGA<ref name="ref1" />
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|-
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| rowspan="4"|siPool2
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| | Sense
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| | GGCAATACAGTGAAAGACA <ref name="ref1" />
 +
|-
 +
| | Sense
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| | GACTTGAGGGTCAACTTTA <ref name="ref1" />
 +
|-
 +
| | Sense
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| | CTCTCTCCATGCTTAGGAA <ref name="ref1" />
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|-
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| | Sense
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| | CCATCCATGGGCCACTGTT <ref name="ref1" />
 +
|}
 +
 
 +
===Disease===
 +
metastatic melanoma <ref name="ref1" />, neuroblastoma <ref name="ref2" />
 +
 
 
===Sequence===
 
===Sequence===
 
>gi|212275242|ref|NR_015410.1| Homo sapiens cancer susceptibility candidate 15 (non-protein coding) (CASC15), long non-coding RNA
 
>gi|212275242|ref|NR_015410.1| Homo sapiens cancer susceptibility candidate 15 (non-protein coding) (CASC15), long non-coding RNA
 
<dnaseq>GTCTGCTCCGGGACTTGGAACAAAAGGGGGAACTCTGATGAACTCTCTTTCCTCCCCTCTCCCCCGGACGCCGGGGTATCTCCCTCTCGCAACTTTGCCGCCCCGACTTTCTCTGCTGTCAGGCCGGGAAAAAGTGTCCGAACGCCTCGTGGACTGCAGCGGGGGAAATGTCCCTTAAAAGTGCGACGAAGTGGGGAAGAAGGTGTAATTACTATTATCAGCATCTAGAAAGCATCATGAATTTGCTGGAGTACTTCCTAGCACTGACCTCCTTCATTCTGCGTTGTTCTTACTGGATCTTTCCATCAGCCAACAATATGGAAGTACCAATACAAGGTCAAATCATTCCTGGATTCATCTGGAGTTGCTTAAAAGTTAAATCATTGGAATTTTTGATGATACCTTTTCTATATGGATTACAATTTGATCGCTGGGAATTCTCCACCTTAAAGAAGTACCCTCAGGTGACTACAGATGTGTTAACACCCAGCATGTTCCGGTAGGAGACTTTCTGGATGGGGAAGATTTCCAGGAATTGGCAACAAGCTCATTTCACTGGTGGGTTTGCTGAAGCATTATCACAAGACAGTCAGAATGACTGATGAGTGCTCTTCAGGTGTGAATCATGGCAATACAGTGAAAGACAGTGATTTACTGCTTTTGAGGGCGTGCATGTATATGATTAACGGATGGAAGTGCAGGACTCCAAGATTTACTTCCTTCCCTTTCCAGCAGAATTACCTGAGACGAGTAAAATCTACTGGTGGAGTCACTCCATTATTCTTATCTGTGGAGATCTAGATCTTGATTTGAAAGTTTCTGAGAAAATCTTCAGCTCAGACTTGAGGGTCAACTTTACCAGCTGAAGGATCTGCATTTACTGCTCAACCACATCTAATTTGATGTCCTCTGCAGATTTAAAATGTGTGCCTTCTCTTCCGTCACCAAGTCATCCCTGGGTTACTACTGAACATCCTTCTCAATTCCCCCCGACCCATGGATGGCTGTTCTCCATTGTCTGTTTCACCAGATGTCCTCAAAACAAACAGACAGAAGAAGGAAGTGGCTAATGGAGCTGTGGAGTCCAAGTGTGACTGCCAAGAGGAATCCAGCAAAGCCAAAAAGCCCAAGCATGTAGCCCTGCCCGAAGCACGCCACACGCATGGAAAACCCAGAGGAAATGAGTGAGGATCAATGGGAAGAAGAGAGCCAGCCAGGAAGTTGAAGATTTGTCCAGGAGCAGATAGCTGAAGAGAGAGAGAGAGAAGAGAGAACGGCTTACAGCTCAGGTCCTCTCTCCATGCTTAGGAACCACTACAAATGCTACTGCCTTGAGTCTCATTTTGTTTCCCTCTGGAAACCACATGTGTACCTTGTTTGCAACAGTATGGGCTCACAGGCAGAAGGAATTTTCCTTGTCTTGGATGAGACTTTTGACTTGGACTTTTGGGTTAAGTTCTGGAGACCAGAAGGCCAAAATCAAAAGTATGGGCAGGCTTGATTTCTTTAGAAGACTCCAGCGGAGAACTGTGTCTCCTTGCTTCTGATTCTACATCTCCATCCATGGGCCACTGTTTCAGCAACCTCAGCCAGTGCAACACAACCTCAGCCAAGAAGAGTATGCAGAGAAAGGAGTCCCCTACCTGCCACAAAACTGTTGTCTGAAAACTGTCTCATATTGTCTCAAGTTGTCATTCATTGTGAATTAGACCTGTTTAACATGTAATCTGCAACATGCTTCACTGTCTAATTTTCCAGAGCCCCTCATATAAGGAACTGTATTATTGGTATAATCATCATGGTGAAGAAGTTGGTATGTGGGGGAGAGATGACAGAAACAGAGAGTAAGTCAGAGCTGGCTGCCTGACAGATAAAAAGGAAATGACCAAAAAAAAAAAAAAAAA</dnaseq>
 
<dnaseq>GTCTGCTCCGGGACTTGGAACAAAAGGGGGAACTCTGATGAACTCTCTTTCCTCCCCTCTCCCCCGGACGCCGGGGTATCTCCCTCTCGCAACTTTGCCGCCCCGACTTTCTCTGCTGTCAGGCCGGGAAAAAGTGTCCGAACGCCTCGTGGACTGCAGCGGGGGAAATGTCCCTTAAAAGTGCGACGAAGTGGGGAAGAAGGTGTAATTACTATTATCAGCATCTAGAAAGCATCATGAATTTGCTGGAGTACTTCCTAGCACTGACCTCCTTCATTCTGCGTTGTTCTTACTGGATCTTTCCATCAGCCAACAATATGGAAGTACCAATACAAGGTCAAATCATTCCTGGATTCATCTGGAGTTGCTTAAAAGTTAAATCATTGGAATTTTTGATGATACCTTTTCTATATGGATTACAATTTGATCGCTGGGAATTCTCCACCTTAAAGAAGTACCCTCAGGTGACTACAGATGTGTTAACACCCAGCATGTTCCGGTAGGAGACTTTCTGGATGGGGAAGATTTCCAGGAATTGGCAACAAGCTCATTTCACTGGTGGGTTTGCTGAAGCATTATCACAAGACAGTCAGAATGACTGATGAGTGCTCTTCAGGTGTGAATCATGGCAATACAGTGAAAGACAGTGATTTACTGCTTTTGAGGGCGTGCATGTATATGATTAACGGATGGAAGTGCAGGACTCCAAGATTTACTTCCTTCCCTTTCCAGCAGAATTACCTGAGACGAGTAAAATCTACTGGTGGAGTCACTCCATTATTCTTATCTGTGGAGATCTAGATCTTGATTTGAAAGTTTCTGAGAAAATCTTCAGCTCAGACTTGAGGGTCAACTTTACCAGCTGAAGGATCTGCATTTACTGCTCAACCACATCTAATTTGATGTCCTCTGCAGATTTAAAATGTGTGCCTTCTCTTCCGTCACCAAGTCATCCCTGGGTTACTACTGAACATCCTTCTCAATTCCCCCCGACCCATGGATGGCTGTTCTCCATTGTCTGTTTCACCAGATGTCCTCAAAACAAACAGACAGAAGAAGGAAGTGGCTAATGGAGCTGTGGAGTCCAAGTGTGACTGCCAAGAGGAATCCAGCAAAGCCAAAAAGCCCAAGCATGTAGCCCTGCCCGAAGCACGCCACACGCATGGAAAACCCAGAGGAAATGAGTGAGGATCAATGGGAAGAAGAGAGCCAGCCAGGAAGTTGAAGATTTGTCCAGGAGCAGATAGCTGAAGAGAGAGAGAGAGAAGAGAGAACGGCTTACAGCTCAGGTCCTCTCTCCATGCTTAGGAACCACTACAAATGCTACTGCCTTGAGTCTCATTTTGTTTCCCTCTGGAAACCACATGTGTACCTTGTTTGCAACAGTATGGGCTCACAGGCAGAAGGAATTTTCCTTGTCTTGGATGAGACTTTTGACTTGGACTTTTGGGTTAAGTTCTGGAGACCAGAAGGCCAAAATCAAAAGTATGGGCAGGCTTGATTTCTTTAGAAGACTCCAGCGGAGAACTGTGTCTCCTTGCTTCTGATTCTACATCTCCATCCATGGGCCACTGTTTCAGCAACCTCAGCCAGTGCAACACAACCTCAGCCAAGAAGAGTATGCAGAGAAAGGAGTCCCCTACCTGCCACAAAACTGTTGTCTGAAAACTGTCTCATATTGTCTCAAGTTGTCATTCATTGTGAATTAGACCTGTTTAACATGTAATCTGCAACATGCTTCACTGTCTAATTTTCCAGAGCCCCTCATATAAGGAACTGTATTATTGGTATAATCATCATGGTGAAGAAGTTGGTATGTGGGGGAGAGATGACAGAAACAGAGAGTAAGTCAGAGCTGGCTGCCTGACAGATAAAAAGGAAATGACCAAAAAAAAAAAAAAAAA</dnaseq>
 +
 +
===labs working on this lncRNA===
 +
*Department of Molecular Oncology, John Wayne Cancer Institute at Providence St-John’s Health Center, 2200 Santa Monica Blvd, Santa Monica, CA, 90404.
 +
 +
*Division of Oncology, The Children's Hospital of Philadelphia, Philadelphia, Pennsylvania.
 +
===References===
 +
<references>
 +
<ref name="ref1"> Lessard L, Liu M, Marzese DM, Wang H, Chong K, Kawas N, et al. The CASC15 Long Intergenic Noncoding RNA Locus Is Involved in Melanoma Progression and Phenotype Switching[J]. The Journal of investigative dermatology. 2015,135(10):2464-74.</ref>(1)
 +
<ref name="ref2">Russell MR, Penikis A, Oldridge DA, Alvarez-Dominguez JR, McDaniel L, Diamond M, et al. CASC15-S Is a Tumor Suppressor lncRNA at the 6p22 Neuroblastoma Susceptibility Locus[J]. Cancer research. 2015,75(15):3155-66.</ref>(2)
 +
</references>

Latest revision as of 11:57, 28 June 2016

Annotated Information

Approved Symbol

CASC15: cancer susceptibility candidate 15 (non-protein coding)

Previous Symbols

LINC00340

Chromosome

6p22.3

RefSeq ID

NR_015410

OMIM ID

616610

Ensembl ID

ENSG00000272168

Characteristics

The CASC15 intergenic locus (NCBI Gene ID: 401237), formerly known as the LINC00340 or FLJ22536locus, spans ~530 kilobases (kb) between the SOX4 and PRL genes on chromosome 6p22.3. [1]

Function

CASC15 regulates melanoma cell phenotype switching between proliferative and invasive state. [1]

CASC15 levels correlated with known gene signatures corresponding to melanoma proliferative and invasive phenotypes.[1]

Expression

CASC15 expression in melanoma specimens. [1].

CASC15 RNA is expressed in melanoma lines and up-regulated in a xenograft model of melanoma brain metastasis.[1]

Experiment Primer Forward primer Reverse primer
q-PCR CASC15 Exons 1-2 5'- TGCGACGAAGTGGGGAAG-3' 5'- CCAGTAAGAACAACGCAGAATGA-3'[1]
CASC15 Exons 4-5 5'-AAGCTCATTTCACTGGTGG-3' 5'-GCAGTAAATCACTGTCTTTCAC-3'[1]
CASC15 Exons 4-5 5'-AAGCTCATTTCACTGGTGG-3' 5'-GCAGTAAATCACTGTCTTTCAC-3'[1]
CASC15 Exons 1b-5 5’-TCATTCCATTGAGCCATT-3' 5'-GCAGTAAATCACTGTCTTTCAC-3'[1]
CASC15 Exons 8 5’-CCAAGAGGAATCCAGCAAAG-3' 5'-TGGCTCTCTTCTTCCCATTG-3'[1]
CASC15 Exons 10-11 5’-TGGACTTTTGGGTTAAGTTC-3' 5'-CAGAAGCAAGGAGACACAGT-3'[1]
CASC15 Exons 11-12 5’-CTGTGTCTCCTTGCTTCTGA-3' 5'-GGTAGGGGACTCCTTTCTCT-3'[1]
Knockdown siPool1 Sense GATTTACTTCCTTCCCTTT [1]
Sense GAGTCACTCCATTATTCTT [1]
Sense GTGTGACTGCCAAGAGGAA[1]
Sense CAAGAAGAGTATGCAGAGA[1]
siPool2 Sense GGCAATACAGTGAAAGACA [1]
Sense GACTTGAGGGTCAACTTTA [1]
Sense CTCTCTCCATGCTTAGGAA [1]
Sense CCATCCATGGGCCACTGTT [1]

Disease

metastatic melanoma [1], neuroblastoma [2]

Sequence

>gi|212275242|ref|NR_015410.1| Homo sapiens cancer susceptibility candidate 15 (non-protein coding) (CASC15), long non-coding RNA

000001 GTCTGCTCCG GGACTTGGAA CAAAAGGGGG AACTCTGATG AACTCTCTTT CCTCCCCTCT CCCCCGGACG CCGGGGTATC 000080
000081 TCCCTCTCGC AACTTTGCCG CCCCGACTTT CTCTGCTGTC AGGCCGGGAA AAAGTGTCCG AACGCCTCGT GGACTGCAGC 000160
000161 GGGGGAAATG TCCCTTAAAA GTGCGACGAA GTGGGGAAGA AGGTGTAATT ACTATTATCA GCATCTAGAA AGCATCATGA 000240
000241 ATTTGCTGGA GTACTTCCTA GCACTGACCT CCTTCATTCT GCGTTGTTCT TACTGGATCT TTCCATCAGC CAACAATATG 000320
000321 GAAGTACCAA TACAAGGTCA AATCATTCCT GGATTCATCT GGAGTTGCTT AAAAGTTAAA TCATTGGAAT TTTTGATGAT 000400
000401 ACCTTTTCTA TATGGATTAC AATTTGATCG CTGGGAATTC TCCACCTTAA AGAAGTACCC TCAGGTGACT ACAGATGTGT 000480
000481 TAACACCCAG CATGTTCCGG TAGGAGACTT TCTGGATGGG GAAGATTTCC AGGAATTGGC AACAAGCTCA TTTCACTGGT 000560
000561 GGGTTTGCTG AAGCATTATC ACAAGACAGT CAGAATGACT GATGAGTGCT CTTCAGGTGT GAATCATGGC AATACAGTGA 000640
000641 AAGACAGTGA TTTACTGCTT TTGAGGGCGT GCATGTATAT GATTAACGGA TGGAAGTGCA GGACTCCAAG ATTTACTTCC 000720
000721 TTCCCTTTCC AGCAGAATTA CCTGAGACGA GTAAAATCTA CTGGTGGAGT CACTCCATTA TTCTTATCTG TGGAGATCTA 000800
000801 GATCTTGATT TGAAAGTTTC TGAGAAAATC TTCAGCTCAG ACTTGAGGGT CAACTTTACC AGCTGAAGGA TCTGCATTTA 000880
000881 CTGCTCAACC ACATCTAATT TGATGTCCTC TGCAGATTTA AAATGTGTGC CTTCTCTTCC GTCACCAAGT CATCCCTGGG 000960
000961 TTACTACTGA ACATCCTTCT CAATTCCCCC CGACCCATGG ATGGCTGTTC TCCATTGTCT GTTTCACCAG ATGTCCTCAA 001040
001041 AACAAACAGA CAGAAGAAGG AAGTGGCTAA TGGAGCTGTG GAGTCCAAGT GTGACTGCCA AGAGGAATCC AGCAAAGCCA 001120
001121 AAAAGCCCAA GCATGTAGCC CTGCCCGAAG CACGCCACAC GCATGGAAAA CCCAGAGGAA ATGAGTGAGG ATCAATGGGA 001200
001201 AGAAGAGAGC CAGCCAGGAA GTTGAAGATT TGTCCAGGAG CAGATAGCTG AAGAGAGAGA GAGAGAAGAG AGAACGGCTT 001280
001281 ACAGCTCAGG TCCTCTCTCC ATGCTTAGGA ACCACTACAA ATGCTACTGC CTTGAGTCTC ATTTTGTTTC CCTCTGGAAA 001360
001361 CCACATGTGT ACCTTGTTTG CAACAGTATG GGCTCACAGG CAGAAGGAAT TTTCCTTGTC TTGGATGAGA CTTTTGACTT 001440
001441 GGACTTTTGG GTTAAGTTCT GGAGACCAGA AGGCCAAAAT CAAAAGTATG GGCAGGCTTG ATTTCTTTAG AAGACTCCAG 001520
001521 CGGAGAACTG TGTCTCCTTG CTTCTGATTC TACATCTCCA TCCATGGGCC ACTGTTTCAG CAACCTCAGC CAGTGCAACA 001600
001601 CAACCTCAGC CAAGAAGAGT ATGCAGAGAA AGGAGTCCCC TACCTGCCAC AAAACTGTTG TCTGAAAACT GTCTCATATT 001680
001681 GTCTCAAGTT GTCATTCATT GTGAATTAGA CCTGTTTAAC ATGTAATCTG CAACATGCTT CACTGTCTAA TTTTCCAGAG 001760
001761 CCCCTCATAT AAGGAACTGT ATTATTGGTA TAATCATCAT GGTGAAGAAG TTGGTATGTG GGGGAGAGAT GACAGAAACA 001840
001841 GAGAGTAAGT CAGAGCTGGC TGCCTGACAG ATAAAAAGGA AATGACCAAA AAAAAAAAAA AAAA

labs working on this lncRNA

  • Department of Molecular Oncology, John Wayne Cancer Institute at Providence St-John’s Health Center, 2200 Santa Monica Blvd, Santa Monica, CA, 90404.
  • Division of Oncology, The Children's Hospital of Philadelphia, Philadelphia, Pennsylvania.

References

  1. ↑ 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 Lessard L, Liu M, Marzese DM, Wang H, Chong K, Kawas N, et al. The CASC15 Long Intergenic Noncoding RNA Locus Is Involved in Melanoma Progression and Phenotype Switching[J]. The Journal of investigative dermatology. 2015,135(10):2464-74.
  2. ↑ Russell MR, Penikis A, Oldridge DA, Alvarez-Dominguez JR, McDaniel L, Diamond M, et al. CASC15-S Is a Tumor Suppressor lncRNA at the 6p22 Neuroblastoma Susceptibility Locus[J]. Cancer research. 2015,75(15):3155-66.
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