FILTERS:
pvalue:0.1
Motif craMmus405083
More information about this gene at Ensembl.org Go to UCSC
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This page describes one atomic motif in this cisRED database. An atomic motif is a result returned by cisRED's motif discovery process operating on an input sequence set. An input sequence set consists of a search region sequence on the target genome (shown in the genome browser view below) and corresponding sequences from other species. A motif consists of a set of conserved sequences ('hits'). It can be represented by a consensus sequence, a position frequency matrix and a sequence logo.

Page Contents

Overview
Sequence Conservation
Motif overview
Atomic motif id craMmus405083
Discovery p-value 2.79E-03
Motif location chr10: 129,386,068-129,386,077 (-) (10 bp)
Search region location chr10: 129,385,123-129,387,303 (-) (2,181 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 24 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Equus caballus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Tupaia belangeri, Tetraodon nigroviridis, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 10 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (7 annot.): IPF1(9.19E-05) ,    OCA-B(1.29E-04) ,    POU2F1(1.47E-04) ,    S8(1.48E-04) ,    POU2F1(2.91E-04) ...
ORegAnno: (3 annot.): FoxA1(3.06E-04) ,    FoxA1(4.74E-04) ,    FoxA1(4.74E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
2 (C-EBPgamma__IPF1)     82 (IRF-7A__POU2F1)     106 (IPF1__Pax-2)     110 (Nkx6-2__OCA-B)     139 (OCA-B__POU2F1)     146 (HNF-1alpha__OCA-B)     179 (Evi-1__POU2F1)     221 (OCA-B__S8)     274 (IPF1__POU2F1)     295 (POU2F1__Pax-6)     302 (OCA-B__STAT5A)     401 (Evi-1__OCA-B)     419 (IPF1__Pax-6)     433 (Nkx6-2__POU2F1)     464 (Evi-1__S8)     540 (IPF1__STAT5A)     574 (Pax-2__S8)     601 (IRF-7A__S8)     666 (C-EBPgamma__OCA-B)     711 (C-EBPgamma__S8)     751 (AFP1__POU2F1)     774 (HNF-1alpha__POU2F1)     780 (C-EBPgamma__POU2F1)     791 (POU2F1__Pax-2)     792 (AFP1__OCA-B)     907 (S8__STAT5A)     946 (OCA-B__RSRFC4)     953 (IPF1__Nkx6-2)     959 (Pax-6__S8)     989 (POU2F1__RSRFC4)     1000 (HNF-1alpha__IPF1)     1013 (Nkx6-2__S8)     1038 (IPF1__RSRFC4)     1128 (POU2F1__STAT5A)     1147 (HNF-1alpha__S8)     1180 (POU2F1__POU2F1)     1181 (POU2F1__S8)     1198 (IRF-7A__OCA-B)     1221 (Evi-1__IPF1)     1347 (IPF1__OCA-B)     1395 (AFP1__S8)     1432 (OCA-B__OCA-B)     1452 (RSRFC4__S8)     1465 (IPF1__IRF-7A)     1524 (OCA-B__Pax-6)     1560 (AFP1__IPF1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TATGnAAsTA TAwTTnCATA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 5 16 4 4 0 24 17 9 0 22
C 0 0 0 0 11 0 0 0 0 0
G 0 0 0 16 6 0 0 0 0 0
T 19 8 20 4 7 0 7 15 24 2
T A T G n A A n T A
1 2 3 4 5 6 7 8 9 10
A 2 24 15 7 0 7 4 20 8 19
C 0 0 0 0 0 6 16 0 0 0
G 0 0 0 0 0 11 0 0 0 0
T 22 0 9 17 24 0 4 4 16 5
T A n T T n C A T A

In the table below, bases highlighted on the Target sequence will link to a single nucleotide polymoprhism in NCBI's dbSNP.

Site Sequence Stack
Ensembl gene ID Type Species Position Std (+)Sequence Std (-)Sequence
ENSMUSG00000059134 Target Mus musculus chr10:129,386,068-129,386,077 + TATGCAATTA – TAATTGCATA
ENSMUSG00000059134_BTAU Orthologue Bos taurus chr5:35,272,900-35,272,909 + TATGTATTTA – TAAATACATA
ENSMUSG00000059134_CFAM Orthologue Canis familiaris chr27:3,057,982-3,057,991 – TATGCAATTA + TAATTGCATA
ENSMUSG00000059134_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000059134_CHOF:339-348 + AATGTATTTA – TAAATACATT
ENSMUSG00000059134_CJAC Orthologue Callithrix jacchus ENSMUSG00000059134_CJAC:80-89 + TTTGGAATTA – TAATTCCAAA
ENSMUSG00000059134_CPOR Orthologue Cavia porcellus ENSMUSG00000059134_CPOR:159-168 – TAAGCAATTA + TAATTGCTTA
ENSMUSG00000059134_DNOV Orthologue Dasypus novemcinctus scaffold_47683:2,055-2,064 – ATTTGATATA + TATATCAAAT
ENSMUSG00000059134_DRER Orthologue Danio rerio chr21:38,705,585-38,705,594 + TTTACAATTA – TAATTGTAAA
ENSMUSG00000059134_ECAB Orthologue Equus caballus ENSMUSG00000059134_ECAB:385-394 + TTTGGAATTA – TAATTCCAAA
ENSMUSG00000059134_ETEL Orthologue Echinops telfairi scaffold_280670:12,575-12,584 + TATGCAAATA – TATTTGCATA
ENSMUSG00000059134_FRUB Orthologue Fugu rubripes chrUn:265,469,164-265,469,173 – TATTGAATTA + TAATTCAATA
ENSMUSG00000059134_GGAL Orthologue Gallus gallus chr10:1,857,723-1,857,732 – TATTCAAATA + TATTTGAATA
ENSMUSG00000059134_HSAP Orthologue Homo sapiens chr12:54,150,973-54,150,982 + TATGCATATA – TATATGCATA
ENSMUSG00000059134_LAFR Orthologue Loxodonta africana scaffold_36914:15,181-15,190 + TTTGGAATTA – TAATTCCAAA
ENSMUSG00000059134_MDOM Orthologue Monodelphis domestica scaffold_33:17,214,676-17,214,685 + TTTGTAATTA – TAATTACAAA
ENSMUSG00000059134_MLUC Orthologue Myotis lucifugus ENSMUSG00000059134_MLUC:564-573 + TATTCATATA – TATATGAATA
ENSMUSG00000059134_MMUL Orthologue Macaca mulatta SCAFFOLD70084:149,835-149,844 – TAAGTAAATA + TATTTACTTA
ENSMUSG00000059134_PPYG Orthologue Pongo pygmaeus ENSMUSG00000059134_PPYG:288-297 – TATACATTTA + TAAATGTATA
ENSMUSG00000059134_PTRO Orthologue Pan troglodytes chr10:55,236,844-55,236,853 + TAAACAATTA – TAATTGTTTA
ENSMUSG00000059134_RNOR Orthologue Rattus norvegicus chr7:7,914,412-7,914,421 + TAAGTAAATA – TATTTACTTA
ENSMUSG00000059134_SSCR Orthologue Sus scrofa ENSMUSG00000059134_SSCR:106-115 + ATTGTAATTT – AAATTACAAT
ENSMUSG00000059134_TBEL Orthologue Tupaia belangeri ENSMUSG00000059134_TBEL:335-344 + AATGTATATT – AATATACATT
ENSMUSG00000059134_TNIG Orthologue Tetraodon nigroviridis chr16:4,600,634-4,600,643 + AATGCAAATA – TATTTGCATT
ENSMUSG00000059134_XTRO Orthologue Xenopus tropicalis scaffold_10:4,101,269-4,101,278 + TTTAGAATTA – TAATTCTAAA

Questions or comments: cisred@bcgsc.ca