Difference between revisions of "NONHSAT091315"

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==Annotated Information==
 
==Annotated Information==
 
===Name===
 
===Name===
−
TUSC7:tumor suppressor candidate 7 (non-protein coding)
+
''TUSC7'': Tumor suppressor candidate 7 (HGNC nomenclature), LOC285194 <ref name="ref1" />.
  
−
LOC285194,NCRNA00295, LSAMP-AS3 LINC00902
+
===Characteristics===
 +
Together with the noncoding RNA BC040587 and the tumor suppressor gene LSAMP (limbic system-associated membrane protein), LOC285194 is present in the focal region of chr3q13.31 (osteo3q13.31), which is the most altered region in osteosarcomas. These genes are proposed to be cooperatively acting tumor suppressors <ref name="ref1" />.
  
−
===Disease===
+
===Features===
−
colorectal cancer
 
  
−
===Features===
 
−
Together with the noncoding RNA BC040587 and the tumor suppressor gene LSAMP (limbic system-associated membrane protein), LOC285194 is present in the focal region of chr3q13.31 (osteo3q13.31), which is the most altered region in osteosarcomas. These genes are proposed to be cooperatively acting tumor suppressors.
 
  
 
Recurrent focal copy-number changes and loss of heterozygosity (LOH), which usually involves loss of LOC285194 and BC040587 expression, implicate these ncRNAs in ostecosarcoma. Focal osteo3q13.31 CNAs and LOH are also common in cell lines from several other cancers (such as lung, autonomic and central nervous system, blood, endometrium, soft tissue, skin, gastrointestinal tract, urinary tract, and breast).
 
Recurrent focal copy-number changes and loss of heterozygosity (LOH), which usually involves loss of LOC285194 and BC040587 expression, implicate these ncRNAs in ostecosarcoma. Focal osteo3q13.31 CNAs and LOH are also common in cell lines from several other cancers (such as lung, autonomic and central nervous system, blood, endometrium, soft tissue, skin, gastrointestinal tract, urinary tract, and breast).
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Genetic deletions of LOC285194 or BC040587 in tumor DNA were also associated with dramatic decrease in survival of osteosarcoma patients.
 
Genetic deletions of LOC285194 or BC040587 in tumor DNA were also associated with dramatic decrease in survival of osteosarcoma patients.
−
===Characteristics===
 
−
Please input characteristics information here.
 
  
 
===Function===
 
===Function===
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Please input allelic information and variation information here.
 
Please input allelic information and variation information here.
  
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===Evolution===
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===Disease===
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Please input evolution information here.
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* Colorectal cancer <ref name="ref2" />
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* Osteosarcoma <ref name="ref" />
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You can also add sub-section(s) at will.
 
  
 
==Labs working on this lncRNA==
 
==Labs working on this lncRNA==
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Please input related labs here.
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* Department of Pathology, Fudan University Shanghai Cancer Center, Shanghai, 200032, China.<ref name="ref2" />
 +
* Department of Oncology, Shanghai Medical College, Fudan University, Shanghai, 200032, China.<ref name="ref2" />
 +
* Institute of Pathology, Fudan University, Shanghai, 200032, China.<ref name="ref2" />
 +
* Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.<ref name="ref2" />
  
 
==References==
 
==References==
−
[http://www.lncrnadb.org/LOC285194/ Annotation originally sourced from lncRNAdb.]
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<references>
 +
<ref name="ref1"> Pasic I, Shlien A, Durbin AD, Stavropoulos DJ, Baskin B, Ray PN et al. Recurrent focal copy-number changes and loss of heterozygosity implicate two noncoding RNAs and one tumor suppressor gene at chromosome 3q13. 31 in osteosarcoma[J]. Cancer research. 2010, 70(1): 160-171.
 +
</ref>(1)
 +
<ref name="ref2"> Qi P, Xu MD, Ni SJ, Huang D, Wei P, Tan C et al. Low expression of LOC285194 is associated with poor prognosis in colorectal cancer[J]. Journal of translational medicine. 2013, 11(1):122.
 +
</ref>(2)
 +
</references>
  
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{{basic|
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===Sequence===  
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tID = NONHSAT091315|
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>gi|285194|ref|NR_015391.1| Homo sapiens tumor suppressor candidate 7 (TUSC7), long non-coding RNA
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source = NONCODE4.0|
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<dnaseq>GGGGTACCAAAGTCCACTCTGAGCTTTTCCTCTGGGAACAGATCCCAGATTATTCCAGACTTAAGACATGGAGATATATCTTGCTAGAGGTAGGAAGATGATAAGATCAGTTTCTATAGGTAGAGGATAATGTGTCCTAAAATGTAGGTAGAGATAAGTCTGACAGTGGTTTAGACAAAAAGGGCCTCTGCTAATGGTGGAGAGATCAAGGAAGAAAAGAGCAACGTTAAAGTGAGGCTGTACCCACAGATCATGCTCAAGCAAATTCGAACCGTGAGCGCATTTCTCTTAAACAATGAACACTTAGAATAAAAATTAAAATTTCCCACAAATTTCTAATTTTAAAATAGTTTCCCAAGATTTCAGTGGTATTGTATATATGCCCATATAATTTTTTGGATTACTATTCCCACAAGTGTAAGATGAAAGAGGACCTGCCCTCCATTCTATCTACTCCCTCTCTGCAAAGGCCATTTTGAAGATCTCAGTTTTACTGAAAGGGGTCTGCCACACATAACTTCCCTGGTGTACCAGCAACAAGTGTTCAGTGGACCATGGCAACACAAAGAATGACGGAGGAGAGAAAATGCCATGCAGAAGTGATAGTCAAGATGAAGATGTGGGAGAGGAGCAGCCCCCAGTATATATTCAGTGTGTCCTCTGAAGTAACAACCATCCCATCTGGCTGAGAAGTGATGGACACGGCTCCTTAACCACACTGTACCCTCTGTTCTTGGCACCTCTCTACCAGAAAGATATCAACAAATTGGATGGAATTCAGAGAACAGTAAGAAAAATGATTAAAGAGATGGAGGCAGTGACTTATGAGGAAAGATGAAAAGGACTAAATCTATGTAGCTTGGCAAAGCAACAACTGAGGTGGCGTATGAAAACTGTCTACAAGCATTTGAAGAATATAAACACCAAGGGAAGAGAGGGAACTTTTTAGAATGGTCTGGGGAATAAGCAGAGTAAGAGGACAGAATTGAAGAAAGGAGAGAGATATGCTAAGTTGGGGGTGGGGGCGTTTTCTCATCAATTGTAAATTTTGATAAATAACAAAATTAAGTCTGGAGAGAAAGAGTTGCATCTCATGCTTTTAGGTTACAATCAGTGTTGACCTGCACTGAGAAAATGTGACTTCCTATTATCCTTCTCAAAGTTATTGCTGCAGAGGAAAGAAGCATACATCTTTTACCCACCAGGAAACCCCCAAAGCATCTATTACCATAATAGCCATGGGAAACAGAAGGCACCTCAAATAAAGGTGGGGAAAAGAATGAAAGAAATGGCTTTGGCCTGTGCCTGTTTGACCTCTGAGAGATACTTTTTGCAAGAAATTGTTAAGTTTTGGCCCAAAAAGTGGTCGGTCTTTTATCCTTCCTTGTGGAGGCCAAACTGCAAACCAGGATGAAGAAACCATCAGTGGCAGTTTGGGGAGGTGGAGGAGGGACTATCTAGACTCAGTGAATCACCAAGGAAACATGAGGCCTATTTCTCTGTGAAGCTGAACTTCAAAAAACAATCTAAGAGATACAAAGGGAAAAGTGTGACTGCTCTGACAGCAAAAACAAGCAAATATCTCCAGAGGGGATTAATCCTTCTGCTTCAAAGTAACTAAAACAAAGAAAGCTGAGCCAGCTTCACTGGAAACAACACCTGTCCATCAGACAAGGATGAGCTAATCAAAAGAAAACACTGCCTATGTGCACGACTCAGCAGCCTGGACAGCTAATACCAAGGAACACGTTTTCACTATAAAGATTCAGCTTTCAAAATCCAGTTCCCTCTTGTAGAGCCACAGGGTTAAAAGGGACCTTAGAGATCATCTACATACAGGCCAAACCCTCAATGAATGCCAGTGTTCGCCTTATGTTCTTCTTGCCGGACTCTTTTCTGGCCTCTGTTCTGTCAGGATGTTTCCTGTTTTGCAAAACAGCTTTAATCCTTGAGTATATTTAATTGTTAGAAAACAGTTCCTCAAATTTGACCCCAAATTTAAGTCTAATTTATGAAGAAAGTTTTGCCTTTGGAGACAGGTTTAATTTTACTTCCATGTGGAAAACCTTCAAATAAAATGATGACTATTGTGTACTCACGAAAAA</dnaseq>
−
same = ,|
 
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classification = intergenic|
 
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length = 2105 nt|
 
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location = chr3+:116428635..116435887|
 
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number = 4|
 
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exons = 116428635..116429268,116431202..116431704,116432886..116432997,116435035..116435887|
 
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context = <html><div align="center">
 
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<iframe src="http://lncrna.big.ac.cn/view/?data=species/human&loc=chr3:116428635..116435887&tracklist=0&overview=0&tracks=DNA,RefGene,lncRNA" style=" border-width:0 " width="100%" height="250" scrolling="yes"></iframe>
 
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</div></html>|
 
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sequence = <dnaseq>GGGGTACCAAAGTCCACTCTGAGCTTTTCCTCTGGGAACAGATCCCAGATTATTCCAGACTTAAGACATGGAGATATATCTTGCTAGAGGTAGGAAGATGATAAGATCAGTTTCTATAGGTAGAGGATAATGTGTCCTAAAATGTAGGTAGAGATAAGTCTGACAGTGGTTTAGACAAAAAGGGCCTCTGCTAATGGTGGAGAGATCAAGGAAGAAAAGAGCAACGTTAAAGTGAGGCTGTACCCACAGATCATGCTCAAGCAAATTCGAACCGTGAGCGCATTTCTCTTAAACAATGAACACTTAGAATAAAAATTAAAATTTCCCACAAATTTCTAATTTTAAAATAGTTTCCCAAGATTTCAGTGGTATTGTATATATGCCCATATAATTTTTTGGATTACTATTCCCACAAGTGTAAGATGAAAGAGGACCTGCCCTCCATTCTATCTACTCCCTCTCTGCAAAGGCCATTTTGAAGATCTCAGTTTTACTGAAAGGGGTCTGCCACACATAACTTCCCTGGTGTACCAGCAACAAGTGTTCAGTGGACCATGGCAACACAAAGAATGACGGAGGAGAGAAAATGCCATGCAGAAGTGATAGTCAAGATGAAGATGTGGGAGAGGAGCAGCCCCCAGTATATATTCAGTGTGTCCTCTGAAGTAACAACCATCCCATCTGGCTGAGAAGTGATGGACACGGCTCCTTAACCACACTGTACCCTCTGTTCTTGGCACCTCTCTACCAGAAAGATATCAACAAATTGGATGGAATTCAGAGAACAGTAAGAAAAATGATTAAAGAGATGGAGGCAGTGACTTATGAGGAAAGATGAAAAGGACTAAATCTATGTAGCTTGGCAAAGCAACAACTGAGGTGGCGTATGAAAACTGTCTACAAGCATTTGAAGAATATAAACACCAAGGGAAGAGAGGGAACTTTTTAGAATGGTCTGGGGAATAAGCAGAGTAAGAGGACAGAATTGAAGAAAGGAGAGAGATATGCTAAGTTGGGGGTGGGGGCGTTTTCTCATCAATTGTAAATTTTGATAAATAACAAAATTAAGTCTGGAGAGAAAGAGTTGCATCTCATGCTTTTAGGTTACAATCAGTGTTGACCTGCACTGAGAAAATGTGACTTCCTATTATCCTTCTCAAAGTTATTGCTGCAGAGGAAAGAAGCATACATCTTTTACCCACCAGGAAACCCCCAAAGCATCTATTACCATAATAGCCATGGGAAACAGAAGGCACCTCAAATAAAGGTGGGGAAAAGAATGAAAGAAATGGCTTTGGCCTGTGCCTGTTTGACCTCTGAGAGATACTTTTTGCAAGAAATTGTTAAGTTTTGGCCCAAAAAGTGGTCGGTCTTTTATCCTTCCTTGTGGAGGCCAAACTGCAAACCAGGATGAAGAAACCATCAGTGGCAGTTTGGGGAGGTGGAGGAGGGACTATCTAGACTCAGTGAATCACCAAGGAAACATGAGGCCTATTTCTCTGTGAAGCTGAACTTCAAAAAACAATCTAAGAGATACAAAGGGAAAAGTGTGACTGCTCTGACAGCAAAAACAAGCAAATATCTCCAGAGGGGATTAATCCTTCTGCTTCAAAGTAACTAAAACAAAGAAAGCTGAGCCAGCTTCACTGGAAACAACACCTGTCCATCAGACAAGGATGAGCTAATCAAAAGAAAACACTGCCTATGTGCACGACTCAGCAGCCTGGACAGCTAATACCAAGGAACACGTTTTCACTATAAAGATTCAGCTTTCAAAATCCAGTTCCCTCTTGTAGAGCCACAGGGTTAAAAGGGACCTTAGAGATCATCTACATACAGGCCAAACCCTCAATGAATGCCAGTGTTCGCCTTATGTTCTTCTTGCCGGACTCTTTTCTGGCCTCTGTTCTGTCAGGATGTTTCCTGTTTTGCAAAACAGCTTTAATCCTTGAGTATATTTAATTGTTAGAAAACAGTTCCTCAAATTTGACCCCAAATTTAAGTCTAATTTATGAAGAAAGTTTTGCCTTTGGAGACAGGTTTAATTTTACTTCCATGTGGAAAACCTTCAAATAAAATGATGACTATTGTGTACTCACGAAAAA</dnaseq>|
 
−
}}
 
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[[Category:Intergenic]][[Category:NONHSAG035806]][[Category:Transcripts]]
 

Revision as of 08:12, 22 November 2018

Please input one-sentence summary here.

Annotated Information

Name

TUSC7: Tumor suppressor candidate 7 (HGNC nomenclature), LOC285194 [1].

Characteristics

Together with the noncoding RNA BC040587 and the tumor suppressor gene LSAMP (limbic system-associated membrane protein), LOC285194 is present in the focal region of chr3q13.31 (osteo3q13.31), which is the most altered region in osteosarcomas. These genes are proposed to be cooperatively acting tumor suppressors [1].

Features

Recurrent focal copy-number changes and loss of heterozygosity (LOH), which usually involves loss of LOC285194 and BC040587 expression, implicate these ncRNAs in ostecosarcoma. Focal osteo3q13.31 CNAs and LOH are also common in cell lines from several other cancers (such as lung, autonomic and central nervous system, blood, endometrium, soft tissue, skin, gastrointestinal tract, urinary tract, and breast).

Depletion of LOC285194 by siRNA promoted proliferation of normal osteoblasts (with a mild increase in the G1 population) by cell-cycle transcripts (Cyclin D1, VEGF, and VEGFR1 up-regulation, and cyclin A2 and cyclin B1 suppression) as well as regulation of apoptotic genes (such as suppression of BCL2 and BimEL pro-apoptotic genes).

Genetic deletions of LOC285194 or BC040587 in tumor DNA were also associated with dramatic decrease in survival of osteosarcoma patients.

Function

Please input function information here.

Expression

Please input expression information here.

Conservation

Please input conservation information here.

Misc

Please input misc information here.

Transcriptomic Nomeclature

Please input transcriptomic nomeclature information here.

Regulation

Please input regulation information here.

Allelic Information and Variation

Please input allelic information and variation information here.

Disease

  • Colorectal cancer [2]
  • Osteosarcoma [3]

Labs working on this lncRNA

  • Department of Pathology, Fudan University Shanghai Cancer Center, Shanghai, 200032, China.[2]
  • Department of Oncology, Shanghai Medical College, Fudan University, Shanghai, 200032, China.[2]
  • Institute of Pathology, Fudan University, Shanghai, 200032, China.[2]
  • Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.[2]

References

  1. ↑ 1.0 1.1 Pasic I, Shlien A, Durbin AD, Stavropoulos DJ, Baskin B, Ray PN et al. Recurrent focal copy-number changes and loss of heterozygosity implicate two noncoding RNAs and one tumor suppressor gene at chromosome 3q13. 31 in osteosarcoma[J]. Cancer research. 2010, 70(1): 160-171.
  2. ↑ 2.0 2.1 2.2 2.3 2.4 Qi P, Xu MD, Ni SJ, Huang D, Wei P, Tan C et al. Low expression of LOC285194 is associated with poor prognosis in colorectal cancer[J]. Journal of translational medicine. 2013, 11(1):122.
  3. ↑ Cite error: Invalid <ref> tag; no text was provided for refs named ref

Sequence

>gi|285194|ref|NR_015391.1| Homo sapiens tumor suppressor candidate 7 (TUSC7), long non-coding RNA

000001 GGGGTACCAA AGTCCACTCT GAGCTTTTCC TCTGGGAACA GATCCCAGAT TATTCCAGAC TTAAGACATG GAGATATATC 000080
000081 TTGCTAGAGG TAGGAAGATG ATAAGATCAG TTTCTATAGG TAGAGGATAA TGTGTCCTAA AATGTAGGTA GAGATAAGTC 000160
000161 TGACAGTGGT TTAGACAAAA AGGGCCTCTG CTAATGGTGG AGAGATCAAG GAAGAAAAGA GCAACGTTAA AGTGAGGCTG 000240
000241 TACCCACAGA TCATGCTCAA GCAAATTCGA ACCGTGAGCG CATTTCTCTT AAACAATGAA CACTTAGAAT AAAAATTAAA 000320
000321 ATTTCCCACA AATTTCTAAT TTTAAAATAG TTTCCCAAGA TTTCAGTGGT ATTGTATATA TGCCCATATA ATTTTTTGGA 000400
000401 TTACTATTCC CACAAGTGTA AGATGAAAGA GGACCTGCCC TCCATTCTAT CTACTCCCTC TCTGCAAAGG CCATTTTGAA 000480
000481 GATCTCAGTT TTACTGAAAG GGGTCTGCCA CACATAACTT CCCTGGTGTA CCAGCAACAA GTGTTCAGTG GACCATGGCA 000560
000561 ACACAAAGAA TGACGGAGGA GAGAAAATGC CATGCAGAAG TGATAGTCAA GATGAAGATG TGGGAGAGGA GCAGCCCCCA 000640
000641 GTATATATTC AGTGTGTCCT CTGAAGTAAC AACCATCCCA TCTGGCTGAG AAGTGATGGA CACGGCTCCT TAACCACACT 000720
000721 GTACCCTCTG TTCTTGGCAC CTCTCTACCA GAAAGATATC AACAAATTGG ATGGAATTCA GAGAACAGTA AGAAAAATGA 000800
000801 TTAAAGAGAT GGAGGCAGTG ACTTATGAGG AAAGATGAAA AGGACTAAAT CTATGTAGCT TGGCAAAGCA ACAACTGAGG 000880
000881 TGGCGTATGA AAACTGTCTA CAAGCATTTG AAGAATATAA ACACCAAGGG AAGAGAGGGA ACTTTTTAGA ATGGTCTGGG 000960
000961 GAATAAGCAG AGTAAGAGGA CAGAATTGAA GAAAGGAGAG AGATATGCTA AGTTGGGGGT GGGGGCGTTT TCTCATCAAT 001040
001041 TGTAAATTTT GATAAATAAC AAAATTAAGT CTGGAGAGAA AGAGTTGCAT CTCATGCTTT TAGGTTACAA TCAGTGTTGA 001120
001121 CCTGCACTGA GAAAATGTGA CTTCCTATTA TCCTTCTCAA AGTTATTGCT GCAGAGGAAA GAAGCATACA TCTTTTACCC 001200
001201 ACCAGGAAAC CCCCAAAGCA TCTATTACCA TAATAGCCAT GGGAAACAGA AGGCACCTCA AATAAAGGTG GGGAAAAGAA 001280
001281 TGAAAGAAAT GGCTTTGGCC TGTGCCTGTT TGACCTCTGA GAGATACTTT TTGCAAGAAA TTGTTAAGTT TTGGCCCAAA 001360
001361 AAGTGGTCGG TCTTTTATCC TTCCTTGTGG AGGCCAAACT GCAAACCAGG ATGAAGAAAC CATCAGTGGC AGTTTGGGGA 001440
001441 GGTGGAGGAG GGACTATCTA GACTCAGTGA ATCACCAAGG AAACATGAGG CCTATTTCTC TGTGAAGCTG AACTTCAAAA 001520
001521 AACAATCTAA GAGATACAAA GGGAAAAGTG TGACTGCTCT GACAGCAAAA ACAAGCAAAT ATCTCCAGAG GGGATTAATC 001600
001601 CTTCTGCTTC AAAGTAACTA AAACAAAGAA AGCTGAGCCA GCTTCACTGG AAACAACACC TGTCCATCAG ACAAGGATGA 001680
001681 GCTAATCAAA AGAAAACACT GCCTATGTGC ACGACTCAGC AGCCTGGACA GCTAATACCA AGGAACACGT TTTCACTATA 001760
001761 AAGATTCAGC TTTCAAAATC CAGTTCCCTC TTGTAGAGCC ACAGGGTTAA AAGGGACCTT AGAGATCATC TACATACAGG 001840
001841 CCAAACCCTC AATGAATGCC AGTGTTCGCC TTATGTTCTT CTTGCCGGAC TCTTTTCTGG CCTCTGTTCT GTCAGGATGT 001920
001921 TTCCTGTTTT GCAAAACAGC TTTAATCCTT GAGTATATTT AATTGTTAGA AAACAGTTCC TCAAATTTGA CCCCAAATTT 002000
002001 AAGTCTAATT TATGAAGAAA GTTTTGCCTT TGGAGACAGG TTTAATTTTA CTTCCATGTG GAAAACCTTC AAATAAAATG 002080
002081 ATGACTATTG TGTACTCACG AAAAA

Predicted Small Protein

Name NONHSAT091315_smProtein_554:688
Length 45
Molecular weight 5090.8545
Aromaticity 0.0681818181818
Instability index 79.2
Isoelectric point 7.94122314453
Runs 9
Runs residual 0.0414438502674
Runs probability 0.0412569432178
Amino acid sequence MATQRMTEERKCHAEVIVKMKMWERSSPQYIFSVSSEVTTIPSG
Secondary structure LLLLLLLHHHLEEEEEEEEEEEEEELLLEEEEEELLEEEEELLL
PRMN -
PiMo -
Retrieved from "https://ngdc.cncb.ac.cn/lncrnawiki1/index.php?title=NONHSAT091315&oldid=1275523"