Difference between revisions of "SAMMSON"
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==Annotated Information== | ==Annotated Information== | ||
===Approved Symbol=== | ===Approved Symbol=== | ||
| − | SAMMSON | + | SAMMSON (survival associated mitochondrial melanoma specific oncogenic non-coding RNA) |
| − | + | [[File:Gene amplification and SOX10-mediated transcription drives SAMMSON expression in melanoma.jpg|right|thumb|400px|'''Gene amplification and SOX10-mediated transcription drives SAMMSON expression in melanoma'''<ref name="ref1" />]] | |
| − | survival associated mitochondrial melanoma specific oncogenic non-coding RNA | + | [[File:SAMMSON is required for melanoma growth and survival..jpg|right|thumb|400px|'''SAMMSON is required for melanoma growth and survival.'''<ref name="ref1" />]] |
===Previous Symbols=== | ===Previous Symbols=== | ||
LINC01212 | LINC01212 | ||
| − | === | + | ===Disease=== |
| − | + | Melanoma | |
===Chromosome=== | ===Chromosome=== | ||
3p13 | 3p13 | ||
| Line 16: | Line 16: | ||
===Ensembl ID=== | ===Ensembl ID=== | ||
ENSG00000240405 | ENSG00000240405 | ||
| − | === | + | ===Characteristics=== |
| − | + | SAMMSON is located ~30 kilobase pair (kb) downstream of MITF. It is a target of the lineage-specific transcription factor SOX10 and its expression is detectable in more than 90% of human melanomas.<ref name="ref1" /> | |
| + | |||
| + | ===Expression=== | ||
| + | SAMMSON expression levels correlated with copy number gain.<ref name="ref1" /> | ||
| + | |||
| + | ===Function=== | ||
| + | SAMMSON interacts with p32, a master regulator of mitochondrial homeostasis and metabolism, to increase its mitochondrial targeting and pro-oncogenic function.<ref name="ref1" /> | ||
| + | SAMMSON is a putative biomarker of melanoma malignancy.<ref name="ref1" /> | ||
| + | |||
| + | ==Labs working on this lncRNA== | ||
| + | * Laboratory For Molecular Cancer Biology, Center for Human Genetics, KULeuven, Herestraat 49, 3000 Leuven, Belgium. <ref name="ref1" /> | ||
| + | * Center for the Biology of Disease, VIB, Herestraat 49, 3000 Leuven, Belgium.<ref name="ref1" /> | ||
| + | ==References== | ||
| + | <references> | ||
| + | <ref name="ref1">Leucci E, Vendramin R, Spinazzi M, Laurette P, Fiers M, Wouters J, Radaelli E,Eyckerman S, Leonelli C, Vanderheyden K, Rogiers A, Hermans E, Baatsen P, Aerts | ||
| + | S, Amant F, Van Aelst S, van den Oord J, de Strooper B, Davidson I, Lafontaine DL, Gevaert K, Vandesompele J, Mestdagh P, Marine JC. Melanoma addiction to the long non-coding RNA SAMMSON. Nature. 2016 Mar 24;531(7595):518-22. doi:10.1038/nature17161. | ||
| + | </ref>(1) | ||
| + | </references> | ||
| + | |||
===Sequence=== | ===Sequence=== | ||
>gi|570359610|ref|NR_110000.1| Homo sapiens survival associated mitochondrial melanoma specific oncogenic non-coding RNA (SAMMSON), long non-coding RNA | >gi|570359610|ref|NR_110000.1| Homo sapiens survival associated mitochondrial melanoma specific oncogenic non-coding RNA (SAMMSON), long non-coding RNA | ||
<dnaseq>CTGAAGTCGCTAGACATTTGAGGAACACATCCGGGGAAGAAGACACAGGTGGCTGGTCATGGAGAGCCCGCTGGGGGAAGAGCACACAGACAGGCACCGGCAGGCCATTGACCAGCGGGACAAGGTGGGCTCAATGTCATCACAAGGGTGCTTAAGAGGGAAAGAGGAAGCCATGAGGGTCAGAGTCAAAGGAAGACTTGAAGATACTACACTGCGGACTTTAAAGATGAAGGAAGGGGCGAAAACCAAGAATGTGGGAAGCCTCTAGAAGCTAGAGAAGGCAAGGAAACAAATTTTCCACTAGAGCCTCCAGAAGGAACACAGCCCTGCTGACCCACTGTAATGTCTGACCTCTAGATGTGTAAGGGTAGTAAGACTGAAAGTCTCAGAAAGGCACTGTTAAATTCTTATTCCTCAACTATGCAACTCAAAACTGGGGTCCTCAGCAGTGAGCGAGGGGTGAGAGAAGACACTGTATAAACATGGCACATCCTCCTGGAAAGTCAACTTTACTCAAAGCTTTAGAAACCCAGCTCAAACTAGCTGAAGCAGAAAAGACATTACTGCGCCTATAAGTTGAAACTTTGGAGGGATAAATTTCAGAGGTGTGGCTAGATCCAACGGCTCTCTGGAAAACTCTGTGAAAAAAATGCTTCCTCAAGTCCAGAAACCAGAAGCTCAGGAAATTGTTGCTTGGTTCCTCTTGTTAGAGGCAGAGATTATTCAACGACCTACAGGGTAGCGTTTGAACATTGTTACCAGGAATCTTTACTTTGCCATCTTCCAAGTCTGTTCTCCTCAGTATTGGTTTCATTTACAAGCAGGCCATCTCTGCCCTCATGGCAATGATGGTCTTTACTCCAGGCTTAAGACCCTTACTATCTACTATTTCCAAAGCGGAGAGAGAACTTCCCACACCTAGTGACCTGTGACACAGGATTTTATCCTTCGTACAGAGGGAATTCAGTTGGCTAACATAATCTGCCTTCCAATGGAGTAAGAATGTCTGGACTCTTTCCTTCACCTACCCCCAAGACATGGAGGCGTCTAAAAGATAAATAAAACTTGGCAACTGACCGAAGGAGGAAGAGGGGATTTCAGGCAAAATCAACGCTGTTCACTACGAGGAGACTTCAGAAAGGTTGCCTGCTTCTGGGGAGCATAGTCCCTGATTCCTCAAGACATACGTTTATTCTTTTCTTCAATGTCTTTGCCTGCAGTCAAAACAAAACCATTACCTTTAGCCAAGTTCACACATTTCAGCCAAATCCATATGCATCGGATCAGTTCTGTAGGTTATGGGTGAGCATGAACATATAAAAGAGGCACCTGCCTGTGCCTATCTACTCCATGGAATTTCAAAAGGGGCCACTTATGGAGAATGTCTTTAGGGACAGAACCAACCACCCTGTCTTTCCTCCAACTCTCAAAGTAACTTCTGGCTTTAATCCTCAAGTGTCTATGCTGGAGTTTAAGAAAAATGTTTTTCATAGAATTCATGTGTATGATATTGCATGAGTTGTCCATCTTTGTATATATCTCAAGACTTGTGGTGTTAGTTAAAGATTCAGAGCTCTGTGTCCTGAACACAGAGTAATACCAGCATTACTAAGGATGATCGTGGGATTTTAAAATTCCTCCCTTAGATAGATCTTACGAACTTATGTTACCAATCAACATAAGTTAAGACAAAAAGAGCAAATTTAGATGTAAAACCATCTTGGGGCCAGGTGCTGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACTAGGTCAGGAGATCGAGACCATCTTGGCCAACACGGTGAAACCCTGTCTCTACTAAAAATACAAAAAAATTAGCCGGGCATGGTGGCAGGCGCCTGTAGTCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATGGTGTGAACCCTGGAAGCGGAGCTTGCAGTGAGCCAAGATCATGCCACTGCACTGCAGCTTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAACCAAACCAACAAA</dnaseq> | <dnaseq>CTGAAGTCGCTAGACATTTGAGGAACACATCCGGGGAAGAAGACACAGGTGGCTGGTCATGGAGAGCCCGCTGGGGGAAGAGCACACAGACAGGCACCGGCAGGCCATTGACCAGCGGGACAAGGTGGGCTCAATGTCATCACAAGGGTGCTTAAGAGGGAAAGAGGAAGCCATGAGGGTCAGAGTCAAAGGAAGACTTGAAGATACTACACTGCGGACTTTAAAGATGAAGGAAGGGGCGAAAACCAAGAATGTGGGAAGCCTCTAGAAGCTAGAGAAGGCAAGGAAACAAATTTTCCACTAGAGCCTCCAGAAGGAACACAGCCCTGCTGACCCACTGTAATGTCTGACCTCTAGATGTGTAAGGGTAGTAAGACTGAAAGTCTCAGAAAGGCACTGTTAAATTCTTATTCCTCAACTATGCAACTCAAAACTGGGGTCCTCAGCAGTGAGCGAGGGGTGAGAGAAGACACTGTATAAACATGGCACATCCTCCTGGAAAGTCAACTTTACTCAAAGCTTTAGAAACCCAGCTCAAACTAGCTGAAGCAGAAAAGACATTACTGCGCCTATAAGTTGAAACTTTGGAGGGATAAATTTCAGAGGTGTGGCTAGATCCAACGGCTCTCTGGAAAACTCTGTGAAAAAAATGCTTCCTCAAGTCCAGAAACCAGAAGCTCAGGAAATTGTTGCTTGGTTCCTCTTGTTAGAGGCAGAGATTATTCAACGACCTACAGGGTAGCGTTTGAACATTGTTACCAGGAATCTTTACTTTGCCATCTTCCAAGTCTGTTCTCCTCAGTATTGGTTTCATTTACAAGCAGGCCATCTCTGCCCTCATGGCAATGATGGTCTTTACTCCAGGCTTAAGACCCTTACTATCTACTATTTCCAAAGCGGAGAGAGAACTTCCCACACCTAGTGACCTGTGACACAGGATTTTATCCTTCGTACAGAGGGAATTCAGTTGGCTAACATAATCTGCCTTCCAATGGAGTAAGAATGTCTGGACTCTTTCCTTCACCTACCCCCAAGACATGGAGGCGTCTAAAAGATAAATAAAACTTGGCAACTGACCGAAGGAGGAAGAGGGGATTTCAGGCAAAATCAACGCTGTTCACTACGAGGAGACTTCAGAAAGGTTGCCTGCTTCTGGGGAGCATAGTCCCTGATTCCTCAAGACATACGTTTATTCTTTTCTTCAATGTCTTTGCCTGCAGTCAAAACAAAACCATTACCTTTAGCCAAGTTCACACATTTCAGCCAAATCCATATGCATCGGATCAGTTCTGTAGGTTATGGGTGAGCATGAACATATAAAAGAGGCACCTGCCTGTGCCTATCTACTCCATGGAATTTCAAAAGGGGCCACTTATGGAGAATGTCTTTAGGGACAGAACCAACCACCCTGTCTTTCCTCCAACTCTCAAAGTAACTTCTGGCTTTAATCCTCAAGTGTCTATGCTGGAGTTTAAGAAAAATGTTTTTCATAGAATTCATGTGTATGATATTGCATGAGTTGTCCATCTTTGTATATATCTCAAGACTTGTGGTGTTAGTTAAAGATTCAGAGCTCTGTGTCCTGAACACAGAGTAATACCAGCATTACTAAGGATGATCGTGGGATTTTAAAATTCCTCCCTTAGATAGATCTTACGAACTTATGTTACCAATCAACATAAGTTAAGACAAAAAGAGCAAATTTAGATGTAAAACCATCTTGGGGCCAGGTGCTGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACTAGGTCAGGAGATCGAGACCATCTTGGCCAACACGGTGAAACCCTGTCTCTACTAAAAATACAAAAAAATTAGCCGGGCATGGTGGCAGGCGCCTGTAGTCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATGGTGTGAACCCTGGAAGCGGAGCTTGCAGTGAGCCAAGATCATGCCACTGCACTGCAGCTTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAACCAAACCAACAAA</dnaseq> | ||
Latest revision as of 13:11, 7 January 2018
Contents
Annotated Information
Approved Symbol
SAMMSON (survival associated mitochondrial melanoma specific oncogenic non-coding RNA)
Gene amplification and SOX10-mediated transcription drives SAMMSON expression in melanoma[1]
SAMMSON is required for melanoma growth and survival.[1]
Previous Symbols
LINC01212
Disease
Melanoma
Chromosome
3p13
RefSeq ID
NR_110000
OMIM ID
616895
Ensembl ID
ENSG00000240405
Characteristics
SAMMSON is located ~30 kilobase pair (kb) downstream of MITF. It is a target of the lineage-specific transcription factor SOX10 and its expression is detectable in more than 90% of human melanomas.[1]
Expression
SAMMSON expression levels correlated with copy number gain.[1]
Function
SAMMSON interacts with p32, a master regulator of mitochondrial homeostasis and metabolism, to increase its mitochondrial targeting and pro-oncogenic function.[1] SAMMSON is a putative biomarker of melanoma malignancy.[1]
Labs working on this lncRNA
- Laboratory For Molecular Cancer Biology, Center for Human Genetics, KULeuven, Herestraat 49, 3000 Leuven, Belgium. [1]
- Center for the Biology of Disease, VIB, Herestraat 49, 3000 Leuven, Belgium.[1]
References
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 Leucci E, Vendramin R, Spinazzi M, Laurette P, Fiers M, Wouters J, Radaelli E,Eyckerman S, Leonelli C, Vanderheyden K, Rogiers A, Hermans E, Baatsen P, Aerts S, Amant F, Van Aelst S, van den Oord J, de Strooper B, Davidson I, Lafontaine DL, Gevaert K, Vandesompele J, Mestdagh P, Marine JC. Melanoma addiction to the long non-coding RNA SAMMSON. Nature. 2016 Mar 24;531(7595):518-22. doi:10.1038/nature17161.
Sequence
>gi|570359610|ref|NR_110000.1| Homo sapiens survival associated mitochondrial melanoma specific oncogenic non-coding RNA (SAMMSON), long non-coding RNA
000001 CTGAAGTCGC TAGACATTTG AGGAACACAT CCGGGGAAGA AGACACAGGT GGCTGGTCAT GGAGAGCCCG CTGGGGGAAG 000080
000081 AGCACACAGA CAGGCACCGG CAGGCCATTG ACCAGCGGGA CAAGGTGGGC TCAATGTCAT CACAAGGGTG CTTAAGAGGG 000160
000161 AAAGAGGAAG CCATGAGGGT CAGAGTCAAA GGAAGACTTG AAGATACTAC ACTGCGGACT TTAAAGATGA AGGAAGGGGC 000240
000241 GAAAACCAAG AATGTGGGAA GCCTCTAGAA GCTAGAGAAG GCAAGGAAAC AAATTTTCCA CTAGAGCCTC CAGAAGGAAC 000320
000321 ACAGCCCTGC TGACCCACTG TAATGTCTGA CCTCTAGATG TGTAAGGGTA GTAAGACTGA AAGTCTCAGA AAGGCACTGT 000400
000401 TAAATTCTTA TTCCTCAACT ATGCAACTCA AAACTGGGGT CCTCAGCAGT GAGCGAGGGG TGAGAGAAGA CACTGTATAA 000480
000481 ACATGGCACA TCCTCCTGGA AAGTCAACTT TACTCAAAGC TTTAGAAACC CAGCTCAAAC TAGCTGAAGC AGAAAAGACA 000560
000561 TTACTGCGCC TATAAGTTGA AACTTTGGAG GGATAAATTT CAGAGGTGTG GCTAGATCCA ACGGCTCTCT GGAAAACTCT 000640
000641 GTGAAAAAAA TGCTTCCTCA AGTCCAGAAA CCAGAAGCTC AGGAAATTGT TGCTTGGTTC CTCTTGTTAG AGGCAGAGAT 000720
000721 TATTCAACGA CCTACAGGGT AGCGTTTGAA CATTGTTACC AGGAATCTTT ACTTTGCCAT CTTCCAAGTC TGTTCTCCTC 000800
000801 AGTATTGGTT TCATTTACAA GCAGGCCATC TCTGCCCTCA TGGCAATGAT GGTCTTTACT CCAGGCTTAA GACCCTTACT 000880
000881 ATCTACTATT TCCAAAGCGG AGAGAGAACT TCCCACACCT AGTGACCTGT GACACAGGAT TTTATCCTTC GTACAGAGGG 000960
000961 AATTCAGTTG GCTAACATAA TCTGCCTTCC AATGGAGTAA GAATGTCTGG ACTCTTTCCT TCACCTACCC CCAAGACATG 001040
001041 GAGGCGTCTA AAAGATAAAT AAAACTTGGC AACTGACCGA AGGAGGAAGA GGGGATTTCA GGCAAAATCA ACGCTGTTCA 001120
001121 CTACGAGGAG ACTTCAGAAA GGTTGCCTGC TTCTGGGGAG CATAGTCCCT GATTCCTCAA GACATACGTT TATTCTTTTC 001200
001201 TTCAATGTCT TTGCCTGCAG TCAAAACAAA ACCATTACCT TTAGCCAAGT TCACACATTT CAGCCAAATC CATATGCATC 001280
001281 GGATCAGTTC TGTAGGTTAT GGGTGAGCAT GAACATATAA AAGAGGCACC TGCCTGTGCC TATCTACTCC ATGGAATTTC 001360
001361 AAAAGGGGCC ACTTATGGAG AATGTCTTTA GGGACAGAAC CAACCACCCT GTCTTTCCTC CAACTCTCAA AGTAACTTCT 001440
001441 GGCTTTAATC CTCAAGTGTC TATGCTGGAG TTTAAGAAAA ATGTTTTTCA TAGAATTCAT GTGTATGATA TTGCATGAGT 001520
001521 TGTCCATCTT TGTATATATC TCAAGACTTG TGGTGTTAGT TAAAGATTCA GAGCTCTGTG TCCTGAACAC AGAGTAATAC 001600
001601 CAGCATTACT AAGGATGATC GTGGGATTTT AAAATTCCTC CCTTAGATAG ATCTTACGAA CTTATGTTAC CAATCAACAT 001680
001681 AAGTTAAGAC AAAAAGAGCA AATTTAGATG TAAAACCATC TTGGGGCCAG GTGCTGTGGC TCACGCCTGT AATCCCAGCA 001760
001761 CTTTGGGAGG CCGAGGCGGG CGGATCACTA GGTCAGGAGA TCGAGACCAT CTTGGCCAAC ACGGTGAAAC CCTGTCTCTA 001840
001841 CTAAAAATAC AAAAAAATTA GCCGGGCATG GTGGCAGGCG CCTGTAGTCC CAGCTACTAG GGAGGCTGAG GCAGGAGAAT 001920
001921 GGTGTGAACC CTGGAAGCGG AGCTTGCAGT GAGCCAAGAT CATGCCACTG CACTGCAGCT TGGGCGACAG AGCGAGACTC 002000
002001 CGTCTCAAAA AAAACCAAAC CAACAAA
000081 AGCACACAGA CAGGCACCGG CAGGCCATTG ACCAGCGGGA CAAGGTGGGC TCAATGTCAT CACAAGGGTG CTTAAGAGGG 000160
000161 AAAGAGGAAG CCATGAGGGT CAGAGTCAAA GGAAGACTTG AAGATACTAC ACTGCGGACT TTAAAGATGA AGGAAGGGGC 000240
000241 GAAAACCAAG AATGTGGGAA GCCTCTAGAA GCTAGAGAAG GCAAGGAAAC AAATTTTCCA CTAGAGCCTC CAGAAGGAAC 000320
000321 ACAGCCCTGC TGACCCACTG TAATGTCTGA CCTCTAGATG TGTAAGGGTA GTAAGACTGA AAGTCTCAGA AAGGCACTGT 000400
000401 TAAATTCTTA TTCCTCAACT ATGCAACTCA AAACTGGGGT CCTCAGCAGT GAGCGAGGGG TGAGAGAAGA CACTGTATAA 000480
000481 ACATGGCACA TCCTCCTGGA AAGTCAACTT TACTCAAAGC TTTAGAAACC CAGCTCAAAC TAGCTGAAGC AGAAAAGACA 000560
000561 TTACTGCGCC TATAAGTTGA AACTTTGGAG GGATAAATTT CAGAGGTGTG GCTAGATCCA ACGGCTCTCT GGAAAACTCT 000640
000641 GTGAAAAAAA TGCTTCCTCA AGTCCAGAAA CCAGAAGCTC AGGAAATTGT TGCTTGGTTC CTCTTGTTAG AGGCAGAGAT 000720
000721 TATTCAACGA CCTACAGGGT AGCGTTTGAA CATTGTTACC AGGAATCTTT ACTTTGCCAT CTTCCAAGTC TGTTCTCCTC 000800
000801 AGTATTGGTT TCATTTACAA GCAGGCCATC TCTGCCCTCA TGGCAATGAT GGTCTTTACT CCAGGCTTAA GACCCTTACT 000880
000881 ATCTACTATT TCCAAAGCGG AGAGAGAACT TCCCACACCT AGTGACCTGT GACACAGGAT TTTATCCTTC GTACAGAGGG 000960
000961 AATTCAGTTG GCTAACATAA TCTGCCTTCC AATGGAGTAA GAATGTCTGG ACTCTTTCCT TCACCTACCC CCAAGACATG 001040
001041 GAGGCGTCTA AAAGATAAAT AAAACTTGGC AACTGACCGA AGGAGGAAGA GGGGATTTCA GGCAAAATCA ACGCTGTTCA 001120
001121 CTACGAGGAG ACTTCAGAAA GGTTGCCTGC TTCTGGGGAG CATAGTCCCT GATTCCTCAA GACATACGTT TATTCTTTTC 001200
001201 TTCAATGTCT TTGCCTGCAG TCAAAACAAA ACCATTACCT TTAGCCAAGT TCACACATTT CAGCCAAATC CATATGCATC 001280
001281 GGATCAGTTC TGTAGGTTAT GGGTGAGCAT GAACATATAA AAGAGGCACC TGCCTGTGCC TATCTACTCC ATGGAATTTC 001360
001361 AAAAGGGGCC ACTTATGGAG AATGTCTTTA GGGACAGAAC CAACCACCCT GTCTTTCCTC CAACTCTCAA AGTAACTTCT 001440
001441 GGCTTTAATC CTCAAGTGTC TATGCTGGAG TTTAAGAAAA ATGTTTTTCA TAGAATTCAT GTGTATGATA TTGCATGAGT 001520
001521 TGTCCATCTT TGTATATATC TCAAGACTTG TGGTGTTAGT TAAAGATTCA GAGCTCTGTG TCCTGAACAC AGAGTAATAC 001600
001601 CAGCATTACT AAGGATGATC GTGGGATTTT AAAATTCCTC CCTTAGATAG ATCTTACGAA CTTATGTTAC CAATCAACAT 001680
001681 AAGTTAAGAC AAAAAGAGCA AATTTAGATG TAAAACCATC TTGGGGCCAG GTGCTGTGGC TCACGCCTGT AATCCCAGCA 001760
001761 CTTTGGGAGG CCGAGGCGGG CGGATCACTA GGTCAGGAGA TCGAGACCAT CTTGGCCAAC ACGGTGAAAC CCTGTCTCTA 001840
001841 CTAAAAATAC AAAAAAATTA GCCGGGCATG GTGGCAGGCG CCTGTAGTCC CAGCTACTAG GGAGGCTGAG GCAGGAGAAT 001920
001921 GGTGTGAACC CTGGAAGCGG AGCTTGCAGT GAGCCAAGAT CATGCCACTG CACTGCAGCT TGGGCGACAG AGCGAGACTC 002000
002001 CGTCTCAAAA AAAACCAAAC CAACAAA
