fRNAdb - Detail Page [FR368738]

FR368738

Summary
Sequence
Secondary Structure

Evidence Mapping [RNAz]

extracted from RNAz track on Genome Browser@hg18

Summary
ID	FR368738
Description	Putative conserved noncoding region (RNAz)
Accession
Sequence Ontology	nc_conserved_region
Organism
Homo sapiens	human , man
Genome Mapping
human(hg18) 1 region	chr14:100592274-100592402(+)
Cross Reference
RNAdb v2.0	RNZ12003
Sequence Similarity

MicroArray / Affymetrix GeneChip Exon Array / hg18
Probe	Transcript Cluster	Probe Locus
5012080	3552379	chr14:100592328-100592352(+)
371015	3552379	chr14:100592368-100592392(+)

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
FR368738    GAAGAUGCAGGAAUGCUGCGAGCAGU---GCCAC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
panTro2     GAAGAUGCAGGAAUGCUGCGAGCAGU---GCCAC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
gorGor1     GAAGAUGCAGGAAUGCUGCGAGCAGU---GCCAC-CUCGUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
ponAbe2     GAAGAUGCAGGAAUGCUGCGAGCAGU---GCCAC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
rheMac2     GAAGAUGCAGGAAUGCUGUGAGCAGU---GCCAC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
calJac1     GAAGGUGCAGGGAUGCUGUGAGCAGC---GCCAC-CUCAUGGUAUUCGGAGGGAGGUUGUC-CGUGGUGA
tarSyr1     GAAGAUGCAAGAGUGCUCCAAGCAGU---GCCGC-CUCAUGGUACUUGGAGGCAGGUUGUC-CAUGGUGA
micMur1     GAAG--------AUACCGCAAGCAGU---GCCAC-CUCCUGGUACUCGGAGGGAGGUCGUC-CGUGGUGA
otoGar1     GAAGAU--------ACUGCAAGCA-U---GCCA--CUCA-UGUACUCAAAGGGA-GUUGUU-CGUGGUGA
rn4         GAAGAUGCAGGAGUGCUGUGAGAAGU---GCCAU-CCCCUGGUCCUUGGAGGGAGGUUGUC-CAUAGUGA
cavPor3     GAGGAAGCAGGAAUGCUGCGAGCAUA---GUGCCCACCCUGGUCCUUGGAGGGAGGUUGUC-CUUGGUGA
mm9         GAAGAUGCAGGAGUGCUGUGAGAAGU---GCCAU-CCCCUGGUACUUGGAGGGAGGUUGCCUCAUAGUGA
speTri1     GAAGACACAGGGCGGCUGCAAGCAGC---GACCC-CUCCUGGUACCUGGAGGGAGGUUGUC-CGUGUAGA
oryCun1     GAAGAUGUGGGAAUGCUGCCAGCAGCAGCGCUGC-CUUCUGGUAC--UGAGGGAGGCUGUC-CGUGGUGA
ochPri2     GAAGAUGUAAGAAUGCUGGCAGCAGC---UCCAC-CUCCCGGUACUGAGAGGAAGAUUGUC-UGUGGUGA
vicPac1     ---GAUGCAGGGAAGCCACGAGCAGU---GCCAC-CGCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
bosTau4     ---GAUGCGGGAACGCCACCAGCAGC---ACUGC-CUCACGGUACUUGGAGGGAGGUUGUC-CGUGGUGA
turTru1     ---GAUGCGGGGAUGCUGCAAGCAGU---GCCGC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
equCab2     ---GACGCAGGGAUGCUGCGAGCAGC---GCCUC-CUCAUGGUACUCGGAGGGAGGUUGUC-CGUGGUGA
felCat3     ---GACGCAGGGACGCUGUGAGCAGC---GCCAC-CUCAUGGUGCUCGGAGAGAGGUUGUC-CGUGGUGA
canFam2     ---GAAGCAGGGACGCCGCGAGCAGC---GGCAC-CUCAUGGUGCUCGGAGGGAGGUUGUC-CGUGGUGA
pteVam1     ---GAUAC-GGGAUGCCGUGAGCACU---GUCAC-CUCGUGGUGC-CGGAGGGAGGUUGUC-CGUGGUGA
proCap1     GAAGAUGCAGGGAUCCUGAACGUAGU---GCCAC-CUCAUGGUACUUGGAGGGAGGUUGUC-CGUGGUGA
dasNov2     GAAGAUGCAGGGAUGCUGAGAGCAGU---GCCGC-CCCAUGGUACUUGGAGGGAGGUUGUC-CGUGGUGA
SS anno     ...............((......))..............((((((.(((((((((((((.(.((((....
pair symbol                ab      ba              abcdef ghijklmnopqrs t uvwx    

offset      7         8         9         0         1         2         3
FR368738    GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCAGAUCUCAC-----CAGG-
panTro2     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCAGAUCUCAC-----CAGG-
gorGor1     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCAGAUCUCAC-----CAGG-
ponAbe2     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCAGAUCUCAC-----CAGG-
rheMac2     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCAGAUCUCAC-----CAGG-
calJac1     GUUCGCAUUACUUAAUGAUGCCCAAUACACGGUCGACCUCUCUUCGGUAUCAAAUCUCAC-----CAGC-
tarSyr1     GUUCGCAUUAUUUAAUGAAUCUC--ACCA-GG--------------------------------------
micMur1     GUUUGCAUUGUUUAAUAAUGCCCAAUACACGGUCGACCUCUUUUCGGUAUCACAUCUCAC-----CGGG-
otoGar1     GUUUGCAUCGUUUAAUGAUGC-CAAUAUAUGGUCUAC-UCUUUUGGGUAUCACAUCACAUCUUACCAG--
rn4         GUUUGCAUUAAUUAAUGAUGCCCAAUGCAGGGUCGACCUCUUUUCUGUGUCACAUCUCAC-----CAGG-
cavPor3     GUUCACGUUACUUAGCGAUGCCCGAUACAUGGUCCAGCUCUUUUCAGUCUCCCAUCUCAC-----UAGG-
mm9         GCUUGCAUUAUUUAAUGAUGCCCAAUACAGGAUAGACCUGUUUUCUGUAUCACAUCUUAC-----CAGG-
speTri1     GUUUGUAGCAUCUAAUGAUGCCCGAUGCACGGCCGACCUCUCUUCAG-----------------------
oryCun1     GUUCGCCUUAGGCGUUGAUGCCCAAUACACGAUCGACCUCUU--UGGUAUCACCUCUCAC-----CAGA-
ochPri2     GUUUGCGUUGUUCAGUGGUGCUCAGUACACAGCCUACCUCUUUUUGGUAUUAUUUCUCAC-----CAGA-
vicPac1     GUUCACAUUAUUUAAUGAUGCCCAAUACACGUUCGAUCUCUUUUCGGAAUCACAUCUCAU-----CUAG-
bosTau4     GUUCGCAUUAUUUAAUGAUGCCCAAUACGCGGUCGAUCUCUUUUCGGUAUCACAUUGCAC-----CGGG-
turTru1     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUAUCACAUCUCAC-----CAGG-
equCab2     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUAUCACAUCUCGC-----CAGG-
felCat3     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUACCACAUCUCGU-----CAUGG
canFam2     GUUCGCAUUAUUUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUACCACAUCUCGU-----CAGG-
pteVam1     GUUCGCAUUGUUUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUAUCGCAUCUCGC-----CAGG-
proCap1     GUUCGCAUUACUUAAUGAUGCCCAAUACACGGUCGACCUCUUUUCAGUAUCACAACUCAC-----CACAG
dasNov2     GUUCGCAUUAUCUAAUGAUGCCCAAUACACGGUCGAUCUCUUUUCGGUAUCACAUCUCGC-----CAAGG
SS anno     ....(((((.......)))))......))))).)))))))))))))))))))..................
pair symbol     yzABC       CBAzy      xwvut srqponmlkjihgfedcba

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