Difference between revisions of "ENST00000427391.1"

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''Firre'', through a 156 bp repeating sequence and interacting with the nuclear matrix factor hnRNPU, localized across a ~5 Mb domain on the X-chromosome and modulate the topological organization of multiple chromosomes.
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''FIRRE'', through a 156 bp repeating sequence and interacting with the nuclear matrix factor hnRNPU, localized across a ~5 Mb domain on the X-chromosome and modulate the topological organization of multiple chromosomes.
  
 
==Annotated Information==
 
==Annotated Information==
===Transcriptomic Nomeclature===
+
===Name===
''Firre'', firre intergenic repeating RNA element (HGNC nomenclature)
+
''FIRRE'', firre intergenic repeating RNA element (HGNC nomenclature)
  
 
"functional intergenic repeating RNA element", LINC01200<ref name="ref1" />
 
"functional intergenic repeating RNA element", LINC01200<ref name="ref1" />
 +
 +
LncBook ID: [https://bigd.big.ac.cn/lncbook/transcript?transid=HSALNT0288976 HSALNT0288976]
 +
 
===Function===
 
===Function===
Firre  has important roles in both cell physiology and nuclear architecture. It may serve to interface with and modulate the topological organization of multiple chromosomes.
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[[File:Firre forms cis and several trans chromosomal contacts.jpg|right|thumb|300px|'''Firre forms cis and several trans chromosomal contacts'''<ref name="ref1" />]]
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 +
Firre  has important roles in both cell physiology and nuclear architecture. It may serve to interface with and modulate the topological organization of multiple chromosomes <ref name="ref1" />.
  
 
===Expression===
 
===Expression===
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===Cellular Localization===
 
===Cellular Localization===
 
Firre is nuclear-localized and forms expression foci on both X-chromosomes prior to, and after X-chromosome inactivation <ref name="ref1" />.
 
Firre is nuclear-localized and forms expression foci on both X-chromosomes prior to, and after X-chromosome inactivation <ref name="ref1" />.
 
  
 
==Labs working on this lncRNA==
 
==Labs working on this lncRNA==
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tID = ENST00000427391.1|
 
tID = ENST00000427391.1|
 
source = Gencode19|
 
source = Gencode19|
same = lnc-FRMD7-1:1,''Firre''|
+
same = lnc-FRMD7-1:1,''FIRRE''|
 
classification = intergenic|
 
classification = intergenic|
 
length = 2928 nt|
 
length = 2928 nt|

Latest revision as of 13:09, 11 August 2019

FIRRE, through a 156 bp repeating sequence and interacting with the nuclear matrix factor hnRNPU, localized across a ~5 Mb domain on the X-chromosome and modulate the topological organization of multiple chromosomes.

Annotated Information

Name

FIRRE, firre intergenic repeating RNA element (HGNC nomenclature)

"functional intergenic repeating RNA element", LINC01200[1]

LncBook ID: HSALNT0288976

Function

Firre forms cis and several trans chromosomal contacts[1]

Firre has important roles in both cell physiology and nuclear architecture. It may serve to interface with and modulate the topological organization of multiple chromosomes [1].

Expression

Firre localization across at least five distinct trans-chromosomal loci, which reside in spatial proximity to the Firre genomic locus on the X-chromosome [1].

Cellular Localization

Firre is nuclear-localized and forms expression foci on both X-chromosomes prior to, and after X-chromosome inactivation [1].

Labs working on this lncRNA

Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts, USA [1].

References

  1. 1.0 1.1 1.2 1.3 1.4 1.5 Hacisuleyman E, Goff LA, Trapnell C, Williams A, Henao-Mejia J, Sun L, et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre[J]. Nature structural & molecular biology. 2014,21(2):198-206.

Basic Information

Transcript ID

ENST00000427391.1

Source

Gencode19

Same with

lnc-FRMD7-1:1,FIRRE

Classification

intergenic

Length

2928 nt

Genomic location

chrX-:130836678..130964671

Exon number

13

Exons

130836678..130837546,130843526..130843584,130845679..130845748,130883334..130883486,130889626..130889774,130890639..130890737,130902577..130902724,130917915..130918067,130928352..130928494,130929837..130930359,130939000..130939065,130959250..130959393,130964320..130964671

Genome context

Sequence
000001 GACACGTGGT GCCTTCAGGC TCTGGGGCCT AGGACCTTTG TGGTAGCAGA GTCACTGCAG AGAACCAGAC AATACCAGGT 000080
000081 TGCTTATAAA AGGATGCCAT GTGCTTGCTG GAGGTCCCAG GTGCAACCAA ATTGCTTGCA GCTAGGAGGA CCTTGAAGAG 000160
000161 AAATGGGATC AGCCCGCCAA ACCAAGAAGG GTTAGCACTT TTGCTAGGAG AGCTGACCAC GCACAAACAG ATGAGAACCA 000240
000241 AAACCGAGTG AAGAGGATTG AAGATGAACC CACATTTTAA AAGTTCTTGT CTGCTGGAGG TGGCATTACC TGTGACCTCG 000320
000321 CTTCACTTCT CCATACATGG CTGTTATAGC AGAAAATCCA GCTTTCTGAA GCATATTTCA CGACATATGA TGAGACTTAT 000400
000401 GTGATGTGAG ACCTGAGAAA ACTATGATAG AAAGAAGCAA CTCAAGTTGC AAGGATATTC CTCATGTATC ATGCAAGGAT 000480
000481 ATTCCTCATA TATCATGCTT TTTCTATCTT CTGCTCTTTG CCACCTGTGA GGTCCCTGAA AATGAAGGCC AATACTACCC 000560
000561 AGATTTGAAT ATTCTAAGAG ATTTCTCAAA AAGCTGATAT TCATAATTTG AGAAGCAATC AAGAACAAAC GTGTACTGAA 000640
000641 ACAGTTGGTG CAAAATCCTT ATTGACCACA GATGGAATTC AGTAATTTAT ATTTCTTCGA AACATAGAAA AACGGAATAC 000720
000721 TGAGATCTGG TGGGGGGCCG GCGGCAGTCT GGGAGCGGCG CGCCATGTAC ACCATCATCA ACGGGCCCAG CAAGTTGGTC 000800
000801 GCGCAGCGCC GCACAGGTCT CACGCAGCAG CAGGTGAAGG GCCAGCTCCA GGAGCTCCTG AAAAGCCGGC AGCCCGCGCC 000880
000881 GCCGACCTTG CAGCCCCAGC GGGCGCAGCC CTTCGCGCAG CCGCTGGGAC CCTGGCCCCT GTCGAGTGCA GGGCCAAGGC 000960
000961 TTGTGTTCAA TCGTGTGAAT CGCCGGCGGG ACCCCTCCAA GTCCCCATCC CTCCAGGGGA CCCAGGAGAC CTACACACTG 001040
001041 GCCCACAAGG AGAATGTCCG CTTTGTGTCC GAAGCCTGGC AGCAGAGACT AAGGTGTCAG TATGTTCTTC AAGCTGCTCT 001120
001121 GCTCCTGGGC CCAAGCTATT CTCCTGCCTC AGCCTTCCAA GAAGCTGAAA CTACAAGAAC ACAAGACTGT ACCTGGCTTG 001200
001201 CAAACACCAT TGCTAATAAG AAGATATTAC ATGGATCCCT GAGGTCGGTC CCCAATACGA CAAGACAATT TGATATCATA 001280
001281 ATAGAACACT GCAGAAACAA TGCTGAGTGA AGAAGAGTAG AAATGGGAAG ACTTGGTTGA GCGGAAACTG AGTTCTTGAA 001360
001361 AAGAGGAGAT GCTTGATGAG GGCATGGATC CCTGAGGTCT GCCCCAGTAC TATAAGACAA TTTGATGTAA GAAAACACAG 001440
001441 CAGATATAAT ACTGAGTGAA GAAGAGTATA AATGAGAAGA TTGGTTGTGC AGATACTGAG TTCATGAAAA GAGGAGATGA 001520
001521 TTGATGAGGC CAGGTGCGGT GACTCATGCC TGTAATCCCT GCACTTTGGG AGGCTGCGGC GGGCGGATCA CCTGAGGTCA 001600
001601 GGAGTTCGAG ACCAGCCTGG GAGACAGAGC ATGGAAACCT AAGGTCTGTA CCCAAAACTA CAGGACTATT TGACATCATA 001680
001681 ATAAAACACT GCAGATATGA TGCTGAGTAA GAGTAGAAAT GGGAAGACTT GGTTGTGCAG TAACTGAGTT CTTGAAAAGA 001760
001761 GGAGATGCTT GATGAGGGCA TGGATCACTA AGGTCTGTTC CCAATACAAG AAGACTCTTT GACATCATAA TAAAATACTG 001840
001841 CAGATACGAT GCT