Difference between revisions of "NONHSAT091315"

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===Characteristics===
 
===Characteristics===
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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" />.
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''TUSC7''  is four exon transcript of 2105 bp long noncoding RNA, located on the focal region of human chromosome chr3q13.31 (osteo3q13.31) <ref name="ref1" />.
  
 
===Features===
 
===Features===
  
  
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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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Recurrent focal copy-number changes and loss of heterozygosity (LOH), which usually involves loss of ''TUSC7'' 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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===Function===
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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).
+
Together with the other noncoding RNA ''BC040587'' and the tumor suppressor gene ''LSAMP'' (limbic system-associated membrane protein) present in focal region (osteo3q13.31), ''TUSC7'' cooperatively acting as tumor suppressor genes <ref name="ref1" />.
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Genetic deletions of LOC285194 or BC040587 in tumor DNA were also associated with dramatic decrease in survival of osteosarcoma patients.
 
  
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===Function===
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Depletion of ''TUSC7'' 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) <ref name="ref1" />.
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Please input function information here.
 
  
 
===Expression===
 
===Expression===
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Please input expression information here.
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''TUSC7'' is significantly downregulated in Colorectal cancer tissues <ref name="ref2" /><ref name="ref3" />.
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{| class='wikitable' style="text-align:center"
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===Conservation===
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|-
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! | Experiment
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! | Forward primer
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===Misc===
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! | Reverse primer
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|-
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| rowspan="1"|qRT-PCR
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===Transcriptomic Nomeclature===
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| | 5’-GGAAACAGAAGGCACCTCA-3’
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| |5’-TCTCAGAGGTCAAACAGGCA-3’<ref name="ref3" />
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|}
  
 
===Regulation===
 
===Regulation===
 
Please input regulation information here.
 
Please input regulation information here.
  
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===Allelic Information and Variation===
 
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Please input allelic information and variation information here.
 
  
 
===Disease===
 
===Disease===
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* Colorectal cancer <ref name="ref2" />
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* Colorectal cancer <ref name="ref2" /><ref name="ref3" />
 
* Osteosarcoma <ref name="ref1" />
 
* Osteosarcoma <ref name="ref1" />
  
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* Institute of Pathology, 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" />
 
* Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.<ref name="ref2" />
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* Department of Colorectal Surgery, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, Shenyang, China.<ref name="ref3" />
  
 
==References==
 
==References==
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<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 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)
 
</ref>(2)
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<ref name="ref3"> Xu J, Zhao J, Zhang R. The novel long noncoding RNA TUSC7 inhibits proliferation by sponging MiR-211 in colorectal cancer[J]. Cellular physiology and biochemistry. 2017, 41(2):635-644.
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</ref>(3)
 
</references>
 
</references>
  

Revision as of 08:30, 22 November 2018

Please input one-sentence summary here.

Annotated Information

Name

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

Characteristics

TUSC7 is four exon transcript of 2105 bp long noncoding RNA, located on the focal region of human chromosome chr3q13.31 (osteo3q13.31) [1].

Features

Recurrent focal copy-number changes and loss of heterozygosity (LOH), which usually involves loss of TUSC7 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).

Function

Together with the other noncoding RNA BC040587 and the tumor suppressor gene LSAMP (limbic system-associated membrane protein) present in focal region (osteo3q13.31), TUSC7 cooperatively acting as tumor suppressor genes [1].

Depletion of TUSC7 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) [1].

Expression

TUSC7 is significantly downregulated in Colorectal cancer tissues [2][3].

Experiment Forward primer Reverse primer
qRT-PCR 5’-GGAAACAGAAGGCACCTCA-3’ 5’-TCTCAGAGGTCAAACAGGCA-3’[3]

Regulation

Please input regulation information here.


Disease

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]
  • Department of Colorectal Surgery, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, Shenyang, China.[3]

References

  1. ↑ 1.0 1.1 1.2 1.3 1.4 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 2.5 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. ↑ 3.0 3.1 3.2 3.3 Xu J, Zhao J, Zhang R. The novel long noncoding RNA TUSC7 inhibits proliferation by sponging MiR-211 in colorectal cancer[J]. Cellular physiology and biochemistry. 2017, 41(2):635-644.

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 -
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