fRNAdb - Detail Page [FR086231]

FR086231

Summary
Sequence
Secondary Structure

Evidence Mapping [RNAz]

extracted from RNAz track on Genome Browser@hg18

Summary
ID	FR086231
Description	Putative conserved noncoding region (RNAz)
Accession
Sequence Ontology	nc_conserved_region
Organism
Homo sapiens	human , man
Genome Mapping
human(hg18) 1 region	chr1:197094800-197094895(+)
Cross Reference
RNAdb v2.0	RNZ3965
Gene Association / AntiSense Overlap / 5'UTR
human(hg18)	DJ027059 (uc001guy.1 )
Sequence Similarity

MicroArray / Affymetrix GeneChip Exon Array / hg18
Probe	Transcript Cluster	Probe Locus
36950	2373971	chr1:197094815-197094839(+)
6319298	2373971	chr1:197094849-197094873(+)
2401635	2373971	chr1:197094864-197094888(+)

Reference
Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome. Washietl S.,Hofacker IL.,Lukasser M.,Hüttenhofer A. and Stadler PF. Nat Biotechnol 23 (11), 1383-90 (2005) RNAdb--a comprehensive mammalian noncoding RNA database. Pang KC.,Stephen S.,Engström PG.,Tajul-Arifin K.,Chen W.,Wahlestedt C.,Lenhard B.,Hayashizaki Y. and Mattick JS. Nucleic Acids Res 33 (Database issue), D125-30 (2005)

Reference

Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome.
Washietl S.,Hofacker IL.,Lukasser M.,Hüttenhofer A. and Stadler PF.
Nat Biotechnol 23 (11), 1383-90 (2005)

RNAdb--a comprehensive mammalian noncoding RNA database.
Pang KC.,Stephen S.,Engström PG.,Tajul-Arifin K.,Chen W.,Wahlestedt C.,Lenhard B.,Hayashizaki Y. and Mattick JS.
Nucleic Acids Res 33 (Database issue), D125-30 (2005)

Evidence :

Evidence Secondary Structure [putative(CentroidAlign)]

Putative secondary structure predicted by CentroidAlign.

Click here to view the PDF file.

offset      0         1         2         3         4         5         6
FR086231    ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
panTro2     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
ponAbe2     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
rheMac2     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
calJac1     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
micMur1     ------------------------------------CCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
tarSyr1     ----------GUAGUUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
otoGar1     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
tupBel1     ----------GGAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
mm9         ----------GUAGAUG-----------AUGGUUAGCUAUAGGGUACAAUCAACGGUCGAUGGUUUUUAU
rn4         ----------GUAGAUA-----------AUGGUUAGCUAUAGGGUACAAUCAACGGUCGAUGGUUUUUAU
dipOrd1     ----------GUAGAUG-----------CUGGGUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
cavPor3     ----------GUAGAUG-----------AUGGUUGGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
speTri1     ----------GCAGUUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
oryCun1     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
ochPri2     ----------GCAGAUC-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
vicPac1     ----------GGCGGUG-----------GUGGUUGGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
turTru1     ----------GGAGAUG-----------GUGGUUGGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
bosTau4     ----------GGAGAUG-----------GUGGUUGGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
equCab2     ----------GGAGAGG-----------AUGGCUAGCCACAGGGCACAAUCAACGGUCGAUGGUUUUGAU
felCat3     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
canFam2     ----------GUAGAUG-----------AUGGUUAGCUAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
myoLuc1     ----------gcagguG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAC
pteVam1     ----------GUGGGUG-----------ACGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAC
eriEur1     ----------GUAGAUG-----------AUGGGUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
sorAra1     ----------GUAGAGG-----------AUUGGUAGCCUUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
proCap1     ----------GUAGACG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
echTel1     ----------GCAGAUA-----------AGGGUUAGCCACAGGGUACAUUCAACGGUCAAUGGUUUGUGC
dasNov2     ----------GUAGAUG-----------ACGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
choHof1     ----------GUAGAUG-----------AUGGUUAGCCAUAGGGUACAAUCAACGGUCGAUGGUUUUGAU
monDom4     GGAAG-A-AGGAUGAUG-----------GUGGUUAGCUGUAGGGUACAAUCAACGGUCGAUGGUUUUCAU
ornAna1     GAAAG-----GAGGACG-----------GUGGUU-GCCGCAGGGUACAAUCAACGGUCGAUGGUUUCUAC
taeGut1     GUAAG-----GAGGAGG-----------AUGGUUAGCUGGAGGGUACAAUCAACGGUCGAUGGUUUUCAC
galGal3     GUAAG-----GAGGAGG-----------AUGGUUAGCUGGAGGGUACAAUCAACGGUCGAUGGUUUUCAC
anoCar1     ggaag-----gaggagg-----------auggUUAGCUGGAGGGUACAAUCAACGGUCGAUGGUUUUCAC
tetNig1     ----------GGAGAUGCUAGGUGAUAAAAUGCCGGCCACGGGGUACAAUCAACGGUCGAUGGUUUUUCC
fr2         ----------GGAGAUGCUAAGUGAUAAAAUGCCGGCCACGGGGUACAAUCAACGGUcgaugguuuuucc
gasAcu1     GGAGACAGCGAGUGAAA-----------GUGGCUCUCCACAGGGUACAAUCAACGGUCGAUGGUUUUCCC
oryLat2     uGGGACACCGGAUGACA-----------AGGACUGGCCACAGGGUACAGUCAACGGUCGAUGGUUUUCUU
danRer5     AGAAGCGAGGCUCGGUA-----------GGGCUCGGCCGCAGGGUACAAUCAACGGUCGAUGGUUUUUUU
SS anno     ..............................((((.(((.(((.(.(((.((((((((((.((((((.((.
pair symbol                               abcd efg hij k lmn opqrstuvwx yzABCD EF 

offset      7         8         9         0         1
FR086231    --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
panTro2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
ponAbe2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
rheMac2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
calJac1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
micMur1     --U-UU-AA-UUCCAAACUCACCGACAGCG-UGAAUGUUCACUGAAGCAAC-C
tarSyr1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
otoGar1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
tupBel1     --U-AU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
mm9         --U-UG-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
rn4         --U-UG-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
dipOrd1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
cavPor3     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
speTri1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
oryCun1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
ochPri2     --U-UU-AA-UUUCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
vicPac1     --U-UUAAA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
turTru1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
bosTau4     --UUUU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
equCab2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
felCat3     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
canFam2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
myoLuc1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAACC
pteVam1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
eriEur1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCGAC-C
sorAra1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
proCap1     --U-UU-AA-UCCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
echTel1     --U-----A-U--UCAACUCACCGACAGCGUUG-AUGUUCACUGA--------
dasNov2     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
choHof1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCUCUGAAGCAAC-C
monDom4     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
ornAna1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
taeGut1     --U-UU-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
galGal3     --U-UA-AA-UUCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
anoCar1     --U-UU-AA-UCCCAAACUCACCGACAGCGUUGAAUGUUCACUGAAGCAAC-C
tetNig1     -AA-UU-UG-GCUCAAACUCACCGACAGCGUUGAAUGUUCACCGGGGCGAG-C
fr2         -aa-uu-ua-gcUCAAACUCACCGACAGCGUUGAAUGUUCACCGGGGCGAG-C
gasAcu1     --A-AC-AUGGCAGAAACUCACCGACAGCGUUGAAUGUUCACUGGGGCGAG-C
oryLat2     CAA-UU-UA-GCUCAAACUCACCGACAGCGUUGAAUGUUCACCGGGGCAAG-A
danRer5     CCA-UU-UA-GCUCAAACUCACCGACAGCGUUGAAUGUUCACUGAGGCAAA-C
SS anno     ...........)).)))).)).))))..)))))).))).).))).)))))).)
pair symbol            FE DCBA zy xwvu  tsrqpo nml k jih gfedcb a

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