NONHSAT059436

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Annotated Information

Name

LINC-ROR

Characteristics

2.6kb, four exons. Most of the sequence is composed of LINE, SINE and LTR elements.

Function

Functions to promote reprogramming of differentiated cells to iPSCs. - Knockdown decreased the number of iPSC colonies formed without affecting cell number. While over-expression increased the number of iPSC colonies formed. Functions in maintenance of ESCs and iPSCs. - Knockdown lead to modest increase in apoptosis and activation of p53 pathways.

Expression

LincRNA enriched in ESC (embryonic stem cells) and iPSCS (induced pluripotent stem cells) compared to the fibroblast and CD34 cells the iPSCs were derived from. Also more highly expressed in iPSCs than ESCs. Locus is a binding site for pluripotency transcription factors Oct4, Sox2 and Nanog. Knockdown of Oct4 or differentiation of stem cells caused down-regulation of lincRNA-RoR expression. Suggesting expression is controlled by these transcription factors.

Conservation

No syntenic correlate expressed in mouse ESCs. Some exons appear to be transcribed from human specific repeat sequences. While others appear limited to certain primates.

Misc

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Transcriptomic Nomeclature

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Regulation

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Allelic Information and Variation

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Evolution

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Labs working on this lncRNA

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References

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID

NONHSAT059436

Source

NONCODE4.0

Same with

,

Classification

intergenic

Length

2591 nt

Genomic location

chr18-:54721802..54739350

Exon number

4

Exons

54721802..54723481,54724731..54725231,54737041..54737234,54739135..54739350

Genome context

Sequence
000001 GGTGAAATAA ACAGCCATGT TGCTCACACA AAGCCTGTTT GGTGGTCTCT TCACACGGAC GCTCATGAAA TTTGGTGATG 000080
000081 TGACTCGGAT AGGGGGACCT CCCTTGGGAG ATCAGTACCC TGTCCTCCTG CTCTTTGCTC CGTGAGAAAG ATCCACCTAC 000160
000161 AACCTCAGGT CCTTAGACCA ACCAGCCCAA GAAACATCTC ACCAATTTCA AATCCAGACC CCACTGGAAA TCGGACTGTC 000240
000241 CAACTCACCT GACAGCCACT CCCACAGCCG CTGGAACTCT GGCCCAAGGC TCTCTGACTC CTTCCCAGAT CTTCTTGGCT 000320
000321 TAGCGGCTGA AGACTGACGC TGCCCGATCG CCTCGGAAGC CCCCTAGACC ATCACGGACG CCGAGCTTCG GGTAACTCTC 000400
000401 ACAGTGGAAG AAACACAACT ACAGATTTCT ACCTGGTGCA TGGCCATCGC TCATGAAGAC TACAACTTCC AGCTTCCTTT 000480
000481 GAAGAAAAAG AGGACTTGAT GGCATTGTCG CTAAGTAAGA AATAATGTGT GTGACTTCAG GGTTGCCCCC TTAAAGGGAG 000560
000561 GGGACATTTT CCATCCTGCT GTTCAGAGTA TGGATGTGAT GAGAGACATC TTGGATGATG CAGAGGAGGT GAACACCCCA 000640
000641 GGACAATGAA ACCACAGGAG AGAAAGAGCC TGCGCTGGCC CATCTAGCAC AGCCACTGGA CACAGGGACC ACCTGCCTCT 000720
000721 GCACTCTTAT GGAAGGAGGA AATCTAACTT TCCCAGTTTA AGGCACTGTT ACTTTGGGCT CCTGTTACAT AACTGTGGCA 000800
000801 GAATGAAGGT TCAACATGGA AACTGGCAAT GTTGAAGAAA CATAAAGTTC ATTGCTTGAA TATCTGAAGT TGTGGACTCA 000880
000881 ATCTCATACC TGCTCCACTT ATGAGTTATA GTTCTTCCAG GTCTCAGGAA TGGGATCAGC AGGTCTCAGG GTTGTACTCT 000960
000961 CCTGGATCTC TCACCAGCCA CCTCAAACCA GCTGCCATAG CCTGTCCACT TCCACTCCAA TCTTCTCTTC CTTCATCACC 001040
001041 TCCCTTGCAC ACCCTGATAA CCTCGAAAGA GAACTCTTCC CAAGGCTCTG TTCCAAACAC ATCGCCACTC TGCTTAGAAC 001120
001121 CTTCAATGAC TCCTCATGGC CTAGGAGGTT TCTCTCCCAT CTGGATCCAG CTGACGTTCC CAGCACCTTC TCCTGACTCC 001200
001201 TGTCTTTTCT TGAACCAGTT CTGCCCAACA AGGAGGAAAG GGCTGACAGA GTGAAAGTCC CAGGGCATGT GGGAATGTGA 001280
001281 CTCTTTTCAC TTTAAATTCT ATGACTGGAA AGTTTTGGGC AGAGTTGGAC ATGTGCACTT AGCTTCCAGA AGACAGAATC 001360
001361 CTTTTAAAAG AGTCAGAGAA AACACTGGCT TCCTGCCATG ACATGAGATA CAGACAGGAG AGTTGGGAAG CTTTTTAAAG 001440
001441 ATGGCACTAT GACTACAATC ACAGAAACTC TCCATGAGGA AGTAAAAGAA AGCACCTGCA ACACTCCAGC TATGCAGACC 001520
001521 ACTCTGTAAT GGGCTCAGAT CTGGACAGGT GTGTGGAAAG GTGGGTCAAC AGGTCAGGCG TCACAGACTT GGAACATTCA 001600
001601 TGGTGGAAAA GAAAAAGCCC CAAAGAAGAG ACTTCAGGAT AAATGAGAAA ATACTCAAGA CAGCAAAAGT CTCTTTTAGA 001680
001681 AATGTTGGAG AAAGAACACT TAATGTCAGG AGTTACTGTT GATTGATGGC CTTACTGTGT AGCAGGTGAG AAACCCATTG 001760
001761 TTCAGTTCCC TAAAGTCACC CTATTCTCCC AATCATCCTA TGGAGGGGGA ACCATGATGG TTATCCCCAT CTTATAAATA 001840
001841 AAGCAACAGA GGCTTAGAAG GACGAACTCT TTTTCTCAAG GTTACCCAGA TCATTTTGCA GAAGTCCCTA GATTTGAATC 001920
001921 ATGCTCTTGC TTTGAGGTTA AAGACACAGG GGAAGTCGAA CTCCTTATCT CCTATATCCT GAATAGGGAA AACCAAACAT 002000
002001 TGTCAAGAGG AGAGGAAGCC TGAGAGTTGG CATGAATCAG AGTGCTGGGC AGTCTGGAGT CTTCCCCACT GAGTTGATGA 002080
002081 TGGAACAGTA GAGTGGGGCC TGAGCCCCGT TAGGGCATGA GCTGCTGAAT GATTCATGTG AACACCATGC ACATGGGAGT 002160
002161 GAGGTTTTGA GCAGTGTGCC ACAGGAGCCT ACCCTCAGGC CCCACCATAA AATGTAGGGC CAGTCCTACA TTTTATCAAT 002240
002241 GACTTGCGTG AACACAGAAA ATGTGGATAC AACCAAAAGG TAACAATCCA ATTAAAAAAT GGACAAAAAA CTTGAATAAA 002320
002321 CATTTCTCAA AAGAAGATAT ACAAATGATC AAAAAGCATA TGAAAAAATG CTCAACATCG CTAATTGTAA GAGAAATGCA 002400
002401 AATCAAAACT ATAATGAGAT ACCACCTTAT ATTGATTAGG AAGACTGCTA TAAAAATAGT AAACAAACAA ACAAACAAAG 002480
002481 TAAGTCTTGG GGAGGATGCA GAGAAATTAA AATTTTTGTG CACTGTTAGT GGGAATGTAA AATGGTGCAG CTGTTACGGG 002560
002561 AAACGGTATG ACAGTTCCTC AAAAAATAAA A
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