Difference between revisions of "NONHSAT016928"

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==Annotated Information==
 
==Annotated Information==
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===Name===
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CAR10: Chromatin Associated RNA 10
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===Characteristics===
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Positioned between 3' ends of of FANK1 (fibronectin) and ADAM12 (ADAM metallopeptidase domain 12) genes, with an overlap of a few hundred base pairs with ADAM12.
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===Function===
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Positively regulates gene expression of FANK1 and ADAM12 neighboring genes through modulating the chromatin structure in cis, as siRNA knock-down of the Intergenic10 ncRNA results in reduced expression of both FANK1 and ADAM12 mRNAs, with a significant decrease in the level of active chromatin mark H3K4me2 on FANK1 and ADAM12 promoters.. Knock-down of the ncRNA had no effect on the expression of two tested distal genes, UROS and DOCK1.. Note: Despite its overlap with the 3' end of ADAM12, Intergenic 10 is not simply an Adam12 3'UTR, as siRNA knockdown of Adam12 failed to decrease FANK1 expression unlike knockdown of CAR Intergenic 10.
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===Expression===
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CAR Intergenic 10, ADAM12 and FANK1 are co-expressed in different tissues, including placenta, brain and a human skin fibroblast (HF) cell line. . CAR Intergenic 10 was most highly expressed in HF cells and very lowly expressed in brain, with placenta in-between.
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===Conservation===
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Please input conservation information here.
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===Misc===
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Please input misc information here.
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===Transcriptomic Nomeclature===
 
===Transcriptomic Nomeclature===
 
Please input transcriptomic nomeclature information here.
 
Please input transcriptomic nomeclature information here.
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===Function===
 
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Please input function information here.
 
  
 
===Regulation===
 
===Regulation===
 
Please input regulation information here.
 
Please input regulation information here.
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===Expression===
 
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Please input expression information here.
 
  
 
===Allelic Information and Variation===
 
===Allelic Information and Variation===
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[[Category:Sense]]
 
[[Category:Sense]]
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{{lncrnadb|
 
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tID = NONHSAT016928|
 
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ltID = CAR Intergenic 10|
 
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ann = <tab class=wikitable sep=tab head=top>
 
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Section Description
 
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ID CAR Intergenic 10
 
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Name CAR10: Chromatin Associated RNA 10
 
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Characteristics Positioned between 3' ends of of FANK1 (fibronectin) and ADAM12 (ADAM metallopeptidase domain 12) genes, with an overlap of a few hundred base pairs with ADAM12.
 
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Expression CAR Intergenic 10, ADAM12 and FANK1 are co-expressed in different tissues, including placenta, brain and a human skin fibroblast (HF) cell line. . CAR Intergenic 10 was most highly expressed in HF cells and very lowly expressed in brain, with placenta in-between.
 
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Function Positively regulates gene expression of FANK1 and ADAM12 neighboring genes through modulating the chromatin structure in cis, as siRNA knock-down of the Intergenic10 ncRNA results in reduced expression of both FANK1 and ADAM12 mRNAs, with a significant decrease in the level of active chromatin mark H3K4me2 on FANK1 and ADAM12 promoters.. Knock-down of the ncRNA had no effect on the expression of two tested distal genes, UROS and DOCK1.. Note: Despite its overlap with the 3' end of ADAM12, Intergenic 10 is not simply an Adam12 3'UTR, as siRNA knockdown of Adam12 failed to decrease FANK1 expression unlike knockdown of CAR Intergenic 10.
 
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</tab>|
 
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}}
 

Revision as of 02:14, 11 October 2014

Please input one-sentence summary here.

Annotated Information

Name

CAR10: Chromatin Associated RNA 10

Characteristics

Positioned between 3' ends of of FANK1 (fibronectin) and ADAM12 (ADAM metallopeptidase domain 12) genes, with an overlap of a few hundred base pairs with ADAM12.

Function

Positively regulates gene expression of FANK1 and ADAM12 neighboring genes through modulating the chromatin structure in cis, as siRNA knock-down of the Intergenic10 ncRNA results in reduced expression of both FANK1 and ADAM12 mRNAs, with a significant decrease in the level of active chromatin mark H3K4me2 on FANK1 and ADAM12 promoters.. Knock-down of the ncRNA had no effect on the expression of two tested distal genes, UROS and DOCK1.. Note: Despite its overlap with the 3' end of ADAM12, Intergenic 10 is not simply an Adam12 3'UTR, as siRNA knockdown of Adam12 failed to decrease FANK1 expression unlike knockdown of CAR Intergenic 10.

Expression

CAR Intergenic 10, ADAM12 and FANK1 are co-expressed in different tissues, including placenta, brain and a human skin fibroblast (HF) cell line. . CAR Intergenic 10 was most highly expressed in HF cells and very lowly expressed in brain, with placenta in-between.

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.

Evolution

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You can also add sub-section(s) at will.

Labs working on this lncRNA

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References

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Basic Information

Transcript ID

NONHSAT016928

Source

NONCODE4.0

Same with

,

Classification

sense

Length

2375 nt

Genomic location

chr10-:127700956..127703336

Exon number

1

Exons

127700956..127703336

Genome context

Sequence
000001 AATGTGACTA GACACAAAGT AGCCCAGAGG CTACTTTTCT TCCTACAGCT TATTATAGTT GTAGGTTCTA TGACCTCACT 000080
000081 TCATGGGTTC CAGGCAATTC CGCTGAAAGG TTTGTCTCCT GAAATTTTTT AAGTTTGTTT TCCTGACACA TGTAATCAGA 000160
000161 TGTGTAGCAA CCGAGGGAAA CGAAGCCTAA CATTCTCCAT TGTGGAAATA CACACAGGAG GTTACACTTC ACAGCGTGGA 000240
000241 TTTTTCCAGC TTACACATGT GGGATGACAT CACAGAAACC ACAAAAGCAG CAAATTAAAC TGTAGGAGAG TCAATACTCC 000320
000321 TGACGAGTCT CGGGGGGGGC ATTTTTATGC CTTCTTAACT TTATGAGAAT TCTCAGGCTG AACTATAGGC CATTGTTCCC 000400
000401 AGGCAAATCA ATACAGCAAT GCATCCTCAA AAAAAAAAAA AAAAAAAAAC GGCTAAAACT GTGTCAAAAT GTTCTTAAGG 000480
000481 AGCCTATGGT CTCCACGGTG CTAAAAAGAG CCTGGTGCTG GGCCGACTGG CAGGGCTGAG CATCCTCCTG CCCCCTCGCC 000560
000561 ACTGATGTTT ACTAAGCACT CTGAGCCAAT GAGACCCCCA GCAGCAGAAA GGGCACAAGG TGGCGCCAGG GCAGCAGGGC 000640
000641 CAGATCTTTC TCATGCACCT CGACCTCTTG CAGACTTTCT TCGTGAGATG TACTACTCAT TTCAAAACTG CTTTGCAGGG 000720
000721 CTCCCCTATG TATTCGGGGG GCCCACGGCA CACTCAGGCT GGAGATCCTT CCTCACTGCG CTCAAGATGG CCTCAGCCAG 000800
000801 ACACCAGTTA CCCAGCTGAA AGTCACAATC CCTCCCAGAA GTCTCCCAAC ACTAGTGCTG ACCAGAGGTG GGGCTCTCAG 000880
000881 GCTAGGAGTT TCACACACAA TGACAGGCTG CTGGGGGACA TTGCAGGACC CCTTTTCCTC TCCTCTCCAT GCTAGAAGCC 000960
000961 AGCCCTAGGC AGCTGCAGTT ACTCCCTGTG ACTCAGCAGC AGGCTGATTC AACACAGCTG CCCACACAAA GCCAGTGGCT 001040
001041 AATACATCTG TTTACCTTTC CCTATCACCC AGACACAAGC CCCTTTCCCA GGTCAAACCA CAGGCCGATG CATCTCCAGT 001120
001121 TTGACAGTCA AATCACTACT TCCATTGCTA CTTTAGATCA GCCAAAGTGG TGACTGCTGC AGTGTGTGGC TATCCCTACA 001200
001201 AGGCCCACCC AAGGGATGCC CAAAGCCCAA CCTTCTCCAG GGCTGCAGCC CAGAGCAACC CCACCAGCCT AAGTCCAGCA 001280
001281 GAGGACCTCC CACCCAATGT CTTGTTCTAA TTAGAAGGGG AAGTTAGCCA CAGAAAATCA ACTTATCTAT AATTACAAAA 001360
001361 TTCTCTTGAC TCACCTTAAA GTTCCTATTG ACATCTACTG CTTTTAAACC TATTTGAAAA CTCTGATACT AAAACAAATG 001440
001441 ACACTCTAAG AAAGTTTGGG AGCCCCATGC TGAGAACCAT TTCTGTGCAG TGAGGATGTT TCCAGAAGCT ACTTACCTAC 001520
001521 ATGTGAATGT GCCATTTTCT TTCCTTTTGT AGAGAAAATC CCCTTTACTT TTTGGAACAG TAATGGCAGC TTCTAGTACA 001600
001601 GCCATTACAG TTTCATATGA GAAAAATTAA GAATAACTAT AAAATTGTTA AAATATCCAA TAATGGATAA TGATGGCCAG 001680
001681 AAGATTTAAC ATACAAAGTA ATTCTCAATG TAAAGCTATT CAGCTCTTCC AGGTTGAATG CCCTGTAACC CACCCTGACC 001760
001761 TTCCACATCA TCTTCAAAAA GCAGTTTCTC TGTT