fRNAdb - Detail Page [FR380875]

FR380875

Summary
Sequence
Secondary Structure

Evidence Mapping [RNAz]

extracted from RNAz track on Genome Browser@hg18

Summary
ID	FR380875
Description	Putative conserved noncoding region (RNAz)
Accession
Sequence Ontology	nc_conserved_region
Organism
Homo sapiens	human , man
Genome Mapping
human(hg18) 1 region	chrX:49661061-49661182(+)
Cross Reference
RNAdb v2.0	RNZ35202
Gene Association / Sense Overlap / Intron
human(hg18)	CLCN5 (uc004doq.1 , uc004dor.1 )
Sequence Similarity

OMIM
ID	Title	Locus
300008	CHLORIDE CHANNEL 5; CLCN5 CHLORIDE CHANNEL, VOLTAGE-GATED, K2; CLCK2 CLC5	Xp11.22(chrX:49700001-54700000)

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
FR380875    UUCUGCUCUGC-UCUUCCUCUCUAAUCCUUUGUCCCUGGGUGAGAGUGC----UUUCUGAAUGCA-AUGC
panTro2     UUCUGCUCUGC-UCUUCCUCUCUAAUCCUUUGUCCCUGGGUGAGAGUGC----UUUCUGAAUGCA-AUGC
gorGor1     UUCUGCUCUGC-UCUUCCUCUCUAAUCGUUUGUCCCUGGGUGAGAGUGC----UUUCUGAAUGCA-AUGC
ponAbe2     UUCUGUCCUGGUUCCCCCUCUCUAAUCCUUGCUACCUGUGUGAGAGUGC---------------------
rheMac2     UUCUGCUCUGC-UCUUCCUCUCUAAUCCUUUGUCCCUGGGUGAGAGUGC----UUUCUGAAUGCA-GUGC
tarSyr1     UUCUGAUUUGC-UUCUCCUCUCUAAUCCUUUGUCCCUGGGUGAGAGUGC----UUUCUAAAUGCA-AUGC
micMur1     UUCUGCUCUGC-UCCUCCUCUCUAAUCCUUUGUCCCUGAGUGAGAGUGC----UUUCUGAAUGCA-AAGC
tupBel1     UUCUGCUCUGC-UCCUCCUCUCUAAUCCUUUGUUCCUGGGUGAGAGUGC----UUUCUGAAUGCA-AUGC
mm9         UUCUGCUCUGC-UCAUCCUCUCUAAUCCUUUGUCCCUGGGUGAAAAUGC----UAUUUGUAUGCA-AUGC
rn4         UUCUGCUCUGC-UCGUCCUCUCUAAUCCUUUGUCCCUGGGUGAAAAUGC----UAUUUGUAUGCA-AUGC
dipOrd1     --CUACUCUGC-UCCUCCUCUCUAAUCCUUUGUCCCUGGGUGAGAAUGCUUGCUUUCUGAAUGCA-AUGC
cavPor3     UUUUGCUUUGC-UCCUCCUCUCUAAUCCUUUGUCCCUGAGUGAGAAUGC----UUUCAGAAUGCA-GUGC
turTru1     UUCUGCUCUGU-UCC-CCCCUCUUCUUUUUUGUCCGUGGGUGAGAGCGC----UUUCUGAAUGCA-GUGC
bosTau4     UUCUGCUCUGU-UUCUCC-----UCUCCUCUGUGCAAAAGUGAGAACGC----CUUCUAAAUGCU-GUGC
equCab2     UUCUAUUCUGC-UCUCCCUCUCUCAUCCUUCGUCCCUGGGUGAGAGUGC----UUUCCGAAUGCA-AUGC
felCat3     CUUUGCUCCG------UCUUUGUCAUCAUGUGUCCCUGGGUGAGAGUGC----UUUCUAAAUGCA-AUGC
canFam2     UUUUGCUCUGC-UCCCUCUUUCUCAUCCUCUGUCCCUGAGUGAGAGUGC----UUUCUAAAUGCA-AUGC
myoLuc1     UUCUGCUCUGC-UCUUCUUCUCUCAUCCUUUGUAUCUGGGUGAGAGUGU----UUUCUGAAUGCAAAUGC
pteVam1     UUCUGCUCUGC-UCCCCCUCUCUCAUCCUUUGUCUCUGGUUGAGAGUGC----UUUCAAAAUGCA-AUGC
sorAra1     uucucuucuuc-----ucucuuucaucucuuuc-aCAAGGUCAGAGUGC----UUGCUGAAUGCA-AUGC
loxAfr2     UUCUGCUCUGC-UCA-CGUCCCUAAUCCUUAGCUCCUGGAUGCGGGUGU----UGUUGCAAUAUA-GUGC
proCap1     UUUUGCUCUGC-CUC-CCUGUCUAAUCCUUGGAUGCAG-------GUGU----UAUGUCUGUACA-CUGC
echTel1     UUCUGUGUAAU------UUCCUUAAUACUUAUUAUCUGGCUGUGAGUUC----UGCCUUACUACA-AUGC
SS anno     .........((.((.(((((((.(((((((.(..((((((((....(((.............)))....)
pair symbol          ab cd efghijk lmnopqr s  tuvwxyzA    BCD             DCB    A

offset      7         8         9         0         1         2
FR380875    ACCCGGGCAAGGAUUCUG-AGAGGGUGAGCCCCCUCUGCGUGGAG---AACAGAAGAUCUGU
panTro2     ACCCGGGCAAGGAUUCUG-AGAGGGUGAGCCCCCUCUGCGUGGAG---AACAGAAGAUCUGU
gorGor1     ACCCGGGCAAGGAUUCUG-AGAGGGUGAGCUCCCUCUGCGUGGAG---AACAGAAGAUCUGU
ponAbe2     -CCCAGGCAAGGAUUCCG-AGAGGGUGAGCCCCCUCUGCGUGGAG---AACAGAAGAUCUGU
rheMac2     ACCCAGGCAAGGAUUCUG-AGAGGGUGAGCCUCCUCUGCGUGGAG---AACAGAAGAUCUGU
tarSyr1     ACCCGGGCAAGGAUUCCG-AGAGGGCAAGCCUCCUCUGCAUGGAGAAGGACUGAAGAUUUCU
micMur1     ACUCGGGCAAGGAUUCCA-AGAGGGUGAGCCUCCUCUGCAUGGAGAAGGACGGAAGAUCUGC
tupBel1     ACCCAGGCAAGAAUUCUG-AAAGGGCGAGCCUCCUCUGCACAGAG---GACAGAAGAUCUGC
mm9         ACCCGGGCAAGGAUUUGG-GGAAGGUGAGCCUGAUCUGCAUGGAGAAGGACAGGAGGUCUGU
rn4         ACCCGGGCAAGGAUUUGG-GGAAGGUAAGCCUGGUCUGCAUGU--GAGGACAGGAGGUCUGU
dipOrd1     ACCUGGGCAAGGAUUCCA-AGAGGGUGAGUCUUCUCUGCAUGGAGAAGGACCGAAGAACUGU
cavPor3     UCCCAGGCAAGGGUUCUG-AGAGGGCGAGCCUCCUCUGCAUGGAGAAGGCCAG---AUCUGC
turTru1     ACCGGCGCAGAGAUUCU--UGAGGGCGAGCCUGCUCUGCAUGGAGCAGGACAGAGGAUAUGG
bosTau4     CCU-GGGUGGAGAUCCU--UGAGGGUGAGCCUGCUCUGCAUGGAGCAGGACAGAUGAUCUGG
equCab2     ACCUGGGCAAGGAUUCC--AGAGGGCGAGGCUCCUCUGCGUGGAGAAGGACAGAGGAUCUGU
felCat3     ACCAGGGUAGGGGUUCU--GGAGGGCAAGUGUCCUCUGCAUGGAGAAGGACAGAGGAUCUGU
canFam2     ACCAGGGUGAGGGUUCU--GGAGGGCAAGCAUCCUUUGCAUGGAGAAGGACAGAGGAUCUGU
myoLuc1     ACUGGAGCAAGUAUUCU--GGAGGGUGAACCUCCUCUGAGUGGAGAAGGACAGAGGAUCUGU
pteVam1     ACUGGGGCAAGGAUUCU--GGAGGGUGAGCCUCCUUUGAGUGUAGAUGAACAGAGGAUCUGU
sorAra1     -CUUGGGCAGGGAUCCUG-GAGGGCAGAGCCUAUUCUGCAUUAAGAGGGACAGGGAAUUUGU
loxAfr2     ACCUGAGCAAUGAUUUUG-AGCCGGUAAGCUGCCUCUGAGUAGAAAAUGACAGAGGA-----
proCap1     ACCUGAGCAAGGAUUCCCAAGCUACUAAGCUACCUCUGAGUAGAGAAGGACAGAGGA-----
echTel1     ACCUGAGCAAGGAUUCCA-AGCCAGUAACCUGCCUCUGAGUAGAGAAGAACAGGAUAUGUAU
SS anno     )))))))))))))))..).)))))).))))...((((....)))).................
pair symbol zyxwvutsrqponml  k jihgfe dcba   abcd    dcba

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