fRNAdb - Detail Page [FR099675]

FR099675

Summary
Sequence
Secondary Structure

Evidence Mapping [RNAz]

extracted from RNAz track on Genome Browser@hg18

Summary
ID	FR099675
Description	Putative conserved noncoding region (RNAz)
Accession
Sequence Ontology	nc_conserved_region
Organism
Homo sapiens	human , man
Genome Mapping
human(hg18) 1 region	chr12:67307276-67307422(+)
Cross Reference
RNAdb v2.0	RNZ9219
Gene Association / Sense Overlap / Intron
human(hg18)	LOC643752 (uc001sub.1 ), RAP1B (uc001suc.1 )
Sequence Similarity

OMIM
ID	Title	Locus
179530	RAS-RELATED PROTEIN RAP1B; RAP1B	12q14(chr12:56300001-66000000)

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
FR099675    ---------GAAAGGACUGUCUCCAGGGUCCCUUAGAGCAACCCAUACAAUACAACA-CACAGGCUGCA-
panTro2     ---------GAAAGGACUGUCUCCAAGGUCCCUUAGAGCAACCCAUACA-----ACA-CACAGGCUGCA-
gorGor1     ---------GAAAGGACUGUCUCCAAGGUCCCUUAGAGCAACCCAUACA-----ACA-CACAGGCUGCA-
ponAbe2     ---------GAAAGGACUGUCUCCAAGGUCCCUUAGAGCAACCCAUACA-----ACA-AACAGGCUGCA-
rheMac2     ---------GAAAGGAGGGGCUCCAAGGUCCCUUAAAGCAAUCCAUACA-----ACA-AACAGGCUGCA-
calJac1     ---------GAAAGGCCUGUCUC-AAGGUCCCUCAGAGCAACCCAUACA-----AGA-AACAGGCUGCAU
xenTro2     GAGCCAUA-AGCAGGAAUGUCCCCAAGGUCCCUUAGAGCACUUUGCACU-----GAG-CGCAAAGCACA-
fr2         ------------GUGUUUGUCUCAGUGGUCCCUUAAUGAUCUCAGCACC-----UCCCAGCUGAGGACA-
tetNig1     -----------------UGUCUCAGUGGUCCCUUAAAGCACUCAGCACC-----UCCCAGCUGAGGACA-
oryLat2     ------UU-GACAGAUUUGUCUCAGUGGUCCCUUAAAGCACUCAGCACC-----UCACAGCUGAGGACA-
danRer5     ------UAGCAAUGGCAUGUUUCAAUGGUCCCUUAAAGGGCCCAGCACU-----ACCCAGCUAGGCUCA-
SS anno     .............(((((........))))).........((((((.............)))))).....
pair symbol              abcde        edcba         abcdef             fedcba     

offset      7         8         9         0         1         2         3
FR099675    UACACUACCAAGGAAGCUGCUGUUUGCAGCCAUUGCACACUGGGCCCCCCCAUGAGGAAAGGAACUCAGU
panTro2     UACACUACCAAGGAAGCUGCUGUUUGCAGCCAUUGCACACUGGGCCC--CCAUGAGGAAAGGAACUCAGU
gorGor1     UACACUACCAAGGAAGCUGCUGUUUGCAGCCAUUGCACACUGGGCCC--CCAUGAGGAAAGGAACUCAGU
ponAbe2     UACACUACCAAGGAAGCUGCUGUUUCCAGCCAUUGCACACUGGGCCC--CCAUGAGGAAAGGAACUCAGU
rheMac2     UACACUACCAAGGAAGCUGCUGUUUGCAGC-AUUGCACACUGGGCCC--ACAUGAGGAAAGGAACUCAGU
calJac1     UACACUACCAAGGAAGGGGCUGUUUGCAGCCAUUGCACAUGGGGCCC--CCAUGAGGAAAGGAACCCAGU
xenTro2     UACACAACCAAGGGAGUCACUGUGCGCAGCCAUUGCACGCCACAUUC--CGAUGGA-AGCAAAACAUGGU
fr2         UACACAACCAGA-GAGUCACUGUCUGCAGCCUUUGCACACCAGAACC--GCACCAC-AGCAGA-ACCAGU
tetNig1     UACACAACCAGA-GAGUCACUGUCUGCAGCCUCUGCACACCAGAACC--GCACCAC-AGCAGA-ACCAGU
oryLat2     UACACAACCAAA-GAGUCUCUGUCUGCAGCCUUUGCACACUGGAGAU--GUACGAG-AACACA-ACCAGU
danRer5     UACACAACCAAA-GAUUUACUGUCUGCAGCCUUUGCACACCACACAA--GUACACACAACCUG-UCCAGU
SS anno     .((..................)).(((((((.......((((((....................))))))
pair symbol  ab                  ba abcdefg       hijklm                    mlkjih

offset      4         5
FR099675    UGGCUUAAUAGGCUGCAG
panTro2     UAGCUUAAUAGGCUGCAG
gorGor1     CGNCUUAAUAGGCUGCAG
ponAbe2     UGGCUUAAUAGGCUGCAG
rheMac2     UGGCUUAAUGGGCUGCAG
calJac1     CGGCCUAAUUGGCUACAG
xenTro2     CGGCUUAAUUGACUGCAG
fr2         CGGCUUAAUAGGCUGCA-
tetNig1     CGGCUUAAUAAGCUGCAG
oryLat2     CGGCUUAAUAAGCUGCAG
danRer5     CGGCUUAAUAAGCUGCAG
SS anno     ..........))))))).
pair symbol           gfedcba

[Return]