fRNAdb - Detail Page [FR223715]

FR223715

Summary
Sequence
Secondary Structure

Evidence Mapping [RNAz]

extracted from RNAz track on Genome Browser@hg18

Summary
ID	FR223715
Description	Putative conserved noncoding region (RNAz)
Accession
Sequence Ontology	nc_conserved_region
Organism
Homo sapiens	human , man
Genome Mapping
human(hg18) 1 region	chr14:100365440-100365544(+)
Cross Reference
RNAdb v2.0	RNZ11976
Gene Association / Sense Overlap / 3'UTR
human(hg18)	FP504 (uc001yhv.2 , uc001yhw.2 , uc001yhx.2 , uc001yhy.2 , uc001yhz.2 , uc001yia.2 , uc001yib.2 , uc001yic.2 , uc001yie.2 , uc010avz.1 )
Sequence Similarity

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
FR223715    AUGUCC-UGAAUGGAAGGAUCC-CUUUGGGAAAUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGG
calJac1     AUGUCC-UAAAUGGAAGGAUCC-CUUUGGGAAUUUCUCAGGAGGGGGACCUGG-GCCG---AGGGCUUGA
rheMac2     AUGUCU-UGAAUGGAAGGAUCC-CUUUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGA
ponAbe2     -------UGAAUGGAAGGAUCC-CUUUGGGAAAUUCUCAGGAAGGGGACCUGG-GCCA---AGGGCUUGA
tarSyr1     AUGUCC-UGUAUGGAAGGAC-C-CUUUGGGAACCUCUCAGGAGUGGGGUCUGG-GUCA---GGGGCCUGG
micMur1     ACGUCC-UGAAUUGAAGGAUCC-UUUUGGAAUUUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGA
gorGor1     AUGUCC-UGAAUGGAAGGAUCC-CUUUGGGAAAUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGG
otoGar1     AUGUCC-AAAAUGGAAGGAUCU-GUUUGAGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGA
panTro2     AUGUCC-UGAAUGGAAGGAUCC-CUUUGGGAAAUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGG
dipOrd1     ACGUCC-UGAGUGGAAGGAUCC-CUUUGGGAGCCCCUCAGGAGGGGGACCUGG-GCCA---AGGGCAGG-
rn4         AUGUCC-UGAGCAGAAGGGUCCCCAAUGGGAACCUCUCAGGAGGGGGGUUUGG-GGCGGCGGGGGGGGGA
mm9         AUGUCC-UGAGCAAAAGGGUCC-CUUUGGGAACCUCUCAGGAGGGGGACCCGG-GUCA---GGGGC--GA
bosTau4     AUGGUC-UGAAAGGAAGGGUCC-CUUUGGGAACUUCUCAGGAGGGAGACCUGG-GCCA---AGGGCUCGG
turTru1     AUGUUC-UGAAUGGAAGAGUCC-CUGUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGA
vicPac1     AUGUCC-UGAAUGGAAGGGUCC-CUUUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUCAA
equCab2     AUGUCC-UGAACGGAAAGAUCC-CUUUGGGAACUCCUCAGGAGGGGGACCUAG-GCCA---GAGGCUCCU
felCat3     ACGUCC-UGAACGGAAGGAUCC-CUUCGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---GGGGCUCGA
canFam2     AUGGCC-UGAACGGAAGGAUCC-CUUUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUUGA
myoLuc1     AUGUCC-UGAAUAGAAGGAUCC-CUUUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUCCG
proCap1     AUGUAAUUGGAUGAAAAGACCC-UUUUGGGAACUUCUCAGGAGGGGGACCGGGGGCCA---AUAGCUUGA
pteVam1     AUGUCC-UGAAUGGAAAGAUCC-CUUUGGGAACUUCUCAGGAGGGGGACCUGG-GCCA---AGGGCUCCA
loxAfr2     AUGCCC-UAGAGGGAAGGACCC-CUUUGGGAACUUCUCAAGAGUGGGACCUGG-GCCA---AUAGCUUGA
echTel1     -----------UGGAAGGAUCC-CUCUGGGAAUUUCUCAGGAGGGGGACCUGG-GCCC---AGAGCAUGG
SS anno     ...........................((.......))..........(((((.(((.....(((.(((.
pair symbol                            ab       ba          abcde fgh     ijk lmn 

offset      7         8         9         0         1
FR223715    CCAGCAUCCUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
calJac1     CCAGCAUCUUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
rheMac2     CCAGCAUCCUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
ponAbe2     CCAGCAUCCUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
tarSyr1     CCAGCACCUCACUGGUAAUUCCAAGGCACUAG-U-GG------------CUUC
micMur1     CCCGCUUCUCCCUGGCAGUUCCAAGCCCCUGGGUGGG------------UGUC
gorGor1     CCAGCAUCCUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
otoGar1     CAAACAUCUCACUGGCAAUUCCAAGGCCCUGGGUGGG------------CUUC
panTro2     CCAGCAUCCUGCUGGCAACUCCAAGGCCCUGGGUGGG------------CUUC
dipOrd1     --------UUGCUGGCAA--------CCUGGGGUGGG------------CUUC
rn4         CCAGCAUCUUGCUGGCAACUGUGGGUGGGGUGGGGUG--------CUUCCUUC
mm9         CCAGCAUCUUGCUGGCAACUCCGUgg-guggggugggguggggugCUUCCUUC
bosTau4     CCAGCAUCUCCCUGGCAAUUCCAAGGCCCAGGGUGGG------------CUUC
turTru1     CCAGCAUCUCACUGGCGAUUCCAAGGCCCAGGGUGGG------------CUUC
vicPac1     CCAGCAUCUCACUGGCAAUUCCAAGGCCC-GGGUGGG------------CUUC
equCab2     CUAGCAUCUCACUGGCGAUUCCAAGGCCCAGGGUGGG------------CUUG
felCat3     CCAGCAUCUCACUGGCAAUUCCAAGGCCCAUGGUGGG------------CUUC
canFam2     CCAGCAUCUCACUGGCAAUUCCAAGGCUCAGGGUGGG------------CUUC
myoLuc1     CCAGCAUCUCACUGGCAAUUCCAAAG-CCGUGGUGGG------------CUUC
proCap1     CCAGCAUCUUGCUGGCAAUUCCAGGGACC-CGG--------------------
pteVam1     CCAGCAUCUCACUGGCAAUUCCAAGGCCC-AGGUGGG------------CUUC
loxAfr2     CCAGCAUCUUGCUGGCAAUUCC-AGGGCCCCGCUGGG------------CUUC
echTel1     CCAGCCUUUUGCUGGCGACCC--AGGCCCACUGUGGG------------UGUC
SS anno     (((((.....)))))))).)))..))))).)))....................
pair symbol opqrs     srqponml kji  hgfed cba

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