FILTERS:
pvalue:0.1
Motif craMmus352310
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 craMmus352310
Discovery p-value 2.79E-03
Motif location chr16: 18,837,010-18,837,019 (-) (10 bp)
Search region location chr16: 18,836,275-18,838,302 (-) (2,028 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 20 species: Mus musculus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri, Xenopus tropicalis
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): FOXP1a(1.06E-04) ,    POU1F1(3.10E-04) ,    Lhx3a(7.65E-04) ,    Nkx6-2(9.09E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AAnsATAATT AATTATwnTT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 17 20 8 9 15 0 18 18 0 6
C 0 0 7 2 0 0 0 0 0 0
G 0 0 0 0 0 0 2 0 0 0
T 3 0 5 9 5 20 0 2 20 14
A A n w A T A A T T
1 2 3 4 5 6 7 8 9 10
A 14 20 2 0 20 5 9 5 0 3
C 0 0 0 2 0 0 0 0 0 0
G 0 0 0 0 0 0 2 7 0 0
T 6 0 18 18 0 15 9 8 20 17
A A T T A T w n T T

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
ENSMUSG00000050742 Target Mus musculus chr16:18,837,010-18,837,019 + AACATTAATA – TATTAATGTT
ENSMUSG00000050742_CFAM Orthologue Canis familiaris chr14:5,350,107-5,350,116 – AACTATAATT + AATTATAGTT
ENSMUSG00000050742_CJAC Orthologue Callithrix jacchus ENSMUSG00000050742_CJAC:60-69 + AAAAATAATT – AATTATTTTT
ENSMUSG00000050742_DNOV Orthologue Dasypus novemcinctus scaffold_106154:5,573-5,582 + AAAATTAATT – AATTAATTTT
ENSMUSG00000050742_DRER Orthologue Danio rerio chr21:38,718,083-38,718,092 + AAAATTAATT – AATTAATTTT
ENSMUSG00000050742_EEUR Orthologue Erinaceus europaeus ENSMUSG00000050742_EEUR:79-88 + AACTTTGATT – AATCAAAGTT
ENSMUSG00000050742_ETEL Orthologue Echinops telfairi scaffold_105643:1,872-1,881 – AAATATAATT + AATTATATTT
ENSMUSG00000050742_FRUB Orthologue Fugu rubripes chrUn:198,143,768-198,143,777 + AATTATAATA – TATTATAATT
ENSMUSG00000050742_GGAL Orthologue Gallus gallus chr5:74,177-74,186 + AACCATAATA – TATTATGGTT
ENSMUSG00000050742_HSAP Orthologue Homo sapiens chr1:244,668,691-244,668,700 + AAATATAATT – AATTATATTT
ENSMUSG00000050742_LAFR Orthologue Loxodonta africana scaffold_1165:47,293-47,302 – AACAATAATA + TATTATTGTT
ENSMUSG00000050742_MDOM Orthologue Monodelphis domestica scaffold_33:16,760,840-16,760,849 – AATAATAATT + AATTATTATT
ENSMUSG00000050742_MMUL Orthologue Macaca mulatta SCAFFOLD105332:47,326-47,335 – AAATATAATT + AATTATATTT
ENSMUSG00000050742_OCUN Orthologue Oryctolagus cuniculus scaffold_176306:5,986-5,995 + AACTATAATT – AATTATAGTT
ENSMUSG00000050742_PTRO Orthologue Pan troglodytes chr1:228,927,463-228,927,472 + AAAAATAATT – AATTATTTTT
ENSMUSG00000050742_RNOR Orthologue Rattus norvegicus chr11:83,814,759-83,814,768 + TATTATAATT – AATTATAATA
ENSMUSG00000050742_SSCR Orthologue Sus scrofa ENSMUSG00000050742_SSCR:307-316 + TATCATGATT – AATCATGATA
ENSMUSG00000050742_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000050742_STRI:70-79 + TACTATATTA – TAATATAGTA
ENSMUSG00000050742_TBEL Orthologue Tupaia belangeri ENSMUSG00000050742_TBEL:43-52 – AAAATTATTT + AAATAATTTT
ENSMUSG00000050742_XTRO Orthologue Xenopus tropicalis scaffold_349:1,202,287-1,202,296 – AATAATAATA + TATTATTATT

Questions or comments: cisred@bcgsc.ca