Difference between revisions of "NONHSAT056039"

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Please input one-sentence summary here.
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SNHG16,shorted forsmall nucleolar RNA host gene 16, which is located on 17q25.1 and has two splice variants, palys significant roles in cancers.
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==Annotated Information==
 
==Annotated Information==
 
===Transcriptomic Nomeclature===
 
===Transcriptomic Nomeclature===
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Please input transcriptomic nomeclature information here.
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''SNHG16'', small nucleolar RNA host gene 16(HGNC nomenclature)
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''ncRAN'', "non-coding RNA expressed in aggressive neuroblastoma"<ref name="ref1" />
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===Characteristics===
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ncRAN, non-coding RNA expressed in aggressive neuroblastoma (ncRAN), is located on 17q25.1 and has two splice variants, a long form (Nbla10727) and a short form (Nbla12061)<ref name="ref2" />
  
 
===Function===
 
===Function===
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Please input function information here.
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ncRAN may be a novel non-coding RNA mapped to the region of 17q gain and act like an oncogene in aggressive neuroblastomas<ref name="ref1" />.
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ncRAN may play an important role in the pathogenesis of human bladder cancer, and may help in designing effective therapy targeting the ncRAN pathway to control bladder cancer growth and invasion<ref name="ref2" />
  
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===Regulation===
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ncRAN might represent a novel prognostic indicator, a biomarker for the early detection of metastasis and a target for gene therapy in CRC<ref name="ref3" />.
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Please input regulation information here.
 
  
 
===Expression===
 
===Expression===
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ncRAN expression is dramatically up-regulated and associated with poor prognosis in human neuroblastoma<ref name="ref1" />.
  
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===Allelic Information and Variation===
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The primers of RT-PCR were as follows,
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Please input allelic information and variation information here.
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{|class='wikitable' style="text-align:center"
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|-
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| | primer
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| | Forward
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| | Reverse
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|-
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| | ncRAN(long-form)
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| | 5'-CAGTCAGCCTCAGTTTCCAA-3'
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| | 5'-AGGCAGGGCTGTGCTGAT-3'<ref name="ref2" />
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|-
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| | ncRAN (short-form)
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| | 5'-ATGTTAGCTCCCAGCGATGC-3'
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| | 5'-CTAACTGCCAAAAGGTTTTCC-3'<ref name="ref2" />
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|}
  
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===Evolution===
 
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You can also add sub-section(s) at will.
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==Labs working on this lncRNA==
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*Division of Biochemistry and Innovative Cancer Therapeutics, Chiba Cancer Center Research Institute, Chiba 260-8717, Japan<ref name="ref1" />
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* Department of Urology, the First affiliated Hospital of China Medical University, China<ref name="ref2" />.
  
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==Labs working on this lncRNA==
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* Department of Pathology, Fudan University Shanghai Cancer Center, Shanghai, China; Department of Oncology, Shanghai Medical College, Fudan University, Shanghai, China; Institute of Pathology, Fudan University, Shanghai, China<ref name="ref3" />.
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Please input related labs here.
 
  
 
==References==
 
==References==
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Please input cited references here.
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<references>
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<ref name="ref1">Yu M, Ohira M, Li Y, Niizuma H, Oo ML, Zhu Y, et al. High expression of ncRAN, a novel non-coding RNA mapped to chromosome 17q25.1, is associated with poor prognosis in neuroblastoma[J]. International journal of oncology. 2009,34(4):931-8.</ref>(1)
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<ref name="ref2">Zhu Y, Yu M, Li Z, Kong C, Bi J, Li J, et al. ncRAN, a newly identified long noncoding RNA, enhances human bladder tumor growth, invasion, and survival[J]. Urology. 2011,77(2):510 e1-5.</ref>(2)
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<ref name="ref3">Qi P, Xu MD, Ni SJ, Shen XH, Wei P, Huang D, et al. Down-regulation of ncRAN, a long non-coding RNA, contributes to colorectal cancer cell migration and invasion and predicts poor overall survival for colorectal cancer patients[J]. Molecular carcinogenesis. 2014.</ref>(3)
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</references>
  
 
{{basic|
 
{{basic|
 
tID = NONHSAT056039|
 
tID = NONHSAT056039|
 
source = NONCODE4.0|
 
source = NONCODE4.0|
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same = ,|
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same = ''SNHG16'', ''ncRAN''|
 
classification = intergenic|
 
classification = intergenic|
 
length = 2538 nt|
 
length = 2538 nt|

Revision as of 10:57, 21 April 2015

SNHG16,shorted forsmall nucleolar RNA host gene 16, which is located on 17q25.1 and has two splice variants, palys significant roles in cancers.

Annotated Information

Transcriptomic Nomeclature

SNHG16, small nucleolar RNA host gene 16(HGNC nomenclature)

ncRAN, "non-coding RNA expressed in aggressive neuroblastoma"[1]

Characteristics

ncRAN, non-coding RNA expressed in aggressive neuroblastoma (ncRAN), is located on 17q25.1 and has two splice variants, a long form (Nbla10727) and a short form (Nbla12061)[2]

Function

ncRAN may be a novel non-coding RNA mapped to the region of 17q gain and act like an oncogene in aggressive neuroblastomas[1].

ncRAN may play an important role in the pathogenesis of human bladder cancer, and may help in designing effective therapy targeting the ncRAN pathway to control bladder cancer growth and invasion[2]

ncRAN might represent a novel prognostic indicator, a biomarker for the early detection of metastasis and a target for gene therapy in CRC[3].

Expression

ncRAN expression is dramatically up-regulated and associated with poor prognosis in human neuroblastoma[1].

The primers of RT-PCR were as follows,

primer Forward Reverse
ncRAN(long-form) 5'-CAGTCAGCCTCAGTTTCCAA-3' 5'-AGGCAGGGCTGTGCTGAT-3'[2]
ncRAN (short-form) 5'-ATGTTAGCTCCCAGCGATGC-3' 5'-CTAACTGCCAAAAGGTTTTCC-3'[2]


Labs working on this lncRNA

  • Division of Biochemistry and Innovative Cancer Therapeutics, Chiba Cancer Center Research Institute, Chiba 260-8717, Japan[1]

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  • Department of Urology, the First affiliated Hospital of China Medical University, China[2].
  • Department of Pathology, Fudan University Shanghai Cancer Center, Shanghai, China; Department of Oncology, Shanghai Medical College, Fudan University, Shanghai, China; Institute of Pathology, Fudan University, Shanghai, China[3].

References

  1. ↑ 1.0 1.1 1.2 1.3 Yu M, Ohira M, Li Y, Niizuma H, Oo ML, Zhu Y, et al. High expression of ncRAN, a novel non-coding RNA mapped to chromosome 17q25.1, is associated with poor prognosis in neuroblastoma[J]. International journal of oncology. 2009,34(4):931-8.
  2. ↑ 2.0 2.1 2.2 2.3 2.4 Zhu Y, Yu M, Li Z, Kong C, Bi J, Li J, et al. ncRAN, a newly identified long noncoding RNA, enhances human bladder tumor growth, invasion, and survival[J]. Urology. 2011,77(2):510 e1-5.
  3. ↑ 3.0 3.1 Qi P, Xu MD, Ni SJ, Shen XH, Wei P, Huang D, et al. Down-regulation of ncRAN, a long non-coding RNA, contributes to colorectal cancer cell migration and invasion and predicts poor overall survival for colorectal cancer patients[J]. Molecular carcinogenesis. 2014.

Basic Information

Transcript ID

NONHSAT056039

Source

NONCODE4.0

Same with

SNHG16, ncRAN

Classification

intergenic

Length

2538 nt

Genomic location

chr17+:74553846..74561430

Exon number

4

Exons

74553846..74553939,74555027..74555125,74557370..74557484,74559201..74561430

Genome context

Sequence
000001 GCGTTCTTTT CGAGGTCGGC CGCGTGGCTG GAAGACATGG CCACTCCAGT CGGTGTTGAG CACGGCGAGC AGTCTCAGGC 000080
000081 CTTTAGTGAT GATGATTAAA GGTGGTGGCT GTGGCCTTGA AAACAGTCAT GTGAAAACTC ATCACCTTAA GGTGTTAAGT 000160
000161 GTAAGGATCT TCATGATGAA ATTTCTGTAA ATGGTGCAGT CAGCCTCAGT TTCCAAAGCC GGAAAAGGAT CCTCTAGTAG 000240
000241 CCACGGTGTG GCAGCTGCTC TGAACCAGGA CCTGGACCCG GACCCAAAGT GCCATGTCTT TAATGTGAGT TAGCTCCCAG 000320
000321 CGATGCCAGA TGGGATCAGC ACAGCCCTGC CTCTGCTGCT AATTGTTCCT CTAAAGTAAT CGCCATGCGT TCTTTGGGCT 000400
000401 TCATCTTTAA AGGAATGAAG CAACTGAGAT TATTCTGGAA AACCTTTTGG CAGTTAGTGA AATTAGAGTA CAACTAAGAA 000480
000481 CATTTTCAGA CCTCCACTGT GGATGACCTG GGTATAATCT CACAAATCGA TGGGACTGCA AGGATTGTAA ACTGAAATGA 000560
000561 ACATGATTAT ACTCTGTTGG AAGAGCCTAA GAGGAAACTG ATGCCATGAG TTTCAGAGAG TAATGCTTAA CCCCAGTTAC 000640
000641 ACAGGATGCC GTCTTGTGTT TCCTCTTGTT TAgttaccca ctacagtgat tttgtgatct gctaatgggt tgccacccac 000720
000721 aACCATTGCT TTAGCACTTT TACTTCAAAT CAATGAAGGA TTGATAAAAG TTCTCCTGGT GTCTCCGCAG AGTGCCTTCC 000800
000801 AGGAACAGAT CTTTGCATAG AATATCAGTG GTTTCCTTTT TTGTTTCAAA TAGTGGTCAG AAAATACCCA GTGTTGACTC 000880
000881 ACCAAGGCAA TCAGCTTCCT TTTTCCCttt ttttgttttt tttttaacat tttatatttt tgctttattt tattttattt 000960
000961 tattttattt tattttattt tattttattt tttgagacgg agttccactc tgtcgccagg ctggagtgaa gtggtacaat 001040
001041 cttggctcac tgcaacctcc acctcccggg ttcaagcaat tctcctggct cagcctcctg agtgctggga ctacaggcgc 001120
001121 gtaccttctt tagtagagac tgggtttcac catgttggcc aggatggtct ctatctcctg accttgtgat ctgcctgcct 001200
001201 cagcttccca aagtgctgag atgacaggtg tgagccatca gacccagcat tttttttttt aatttaaatt taaatttttt 001280
001281 ttcatttttt tgagaggttt tttttgtttt gttttgttgt tgttgttgtt gttgtttttg agacagtctt gctctgtcac 001360
001361 ccaggctggg agtgcagtgg catgatctct gcaacctcta cctcccaggt tcaagcaatt cttgtgcctc agcctcccaa 001440
001441 gtaactggga ctacaggtgc acgctaccac acctggctga ttttttttgt tttagtagag acagggtttc aaccatgttg 001520
001521 cccaggttgg tctcaaactc ctgagctcag gcaatccacc cgccttggcc tcccaaagtg ctaggattac ag