FILTERS:
pvalue:0.1
Motif craMmus301687
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 craMmus301687
Discovery p-value 2.79E-03
Motif location chr6: 42,404,925-42,404,934 (-) (10 bp)
Search region location chr6: 42,403,800-42,405,535 (-) (1,736 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 17 species: Mus musculus, Canis familiaris, Callithrix jacchus, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (3 annot.): Nkx6-2(5.25E-05) ,    HNF-6(3.04E-04) ,    IPF1(9.46E-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 CCATGTAyTT AArTACATGG
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 0 17 0 0 0 17 0 0 0
C 15 16 0 0 0 0 0 9 0 0
G 1 0 0 0 13 0 0 0 0 0
T 1 1 0 17 4 17 0 8 17 17
C C A T G T A y T T
1 2 3 4 5 6 7 8 9 10
A 17 17 8 0 17 4 17 0 1 1
C 0 0 0 0 0 13 0 0 0 1
G 0 0 9 0 0 0 0 0 16 15
T 0 0 0 17 0 0 0 17 0 0
A A r T A C A T G G

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
ENSMUSG00000068574 Target Mus musculus chr6:42,404,925-42,404,934 + CCATTTATTT – AAATAAATGG
ENSMUSG00000068574_CFAM Orthologue Canis familiaris chr16:9,194,361-9,194,370 + CCATGTACTT – AAGTACATGG
ENSMUSG00000068574_CJAC Orthologue Callithrix jacchus ENSMUSG00000068574_CJAC:1,171-1,180 + CCATGTATTT – AAATACATGG
ENSMUSG00000068574_DNOV Orthologue Dasypus novemcinctus scaffold_44078:12,401-12,410 – CCATGTACTT + AAGTACATGG
ENSMUSG00000068574_ECAB Orthologue Equus caballus ENSMUSG00000068574_ECAB:863-872 + CCATTTACTT – AAGTAAATGG
ENSMUSG00000068574_EEUR Orthologue Erinaceus europaeus ENSMUSG00000068574_EEUR:259-268 + CTATGTACTT – AAGTACATAG
ENSMUSG00000068574_ETEL Orthologue Echinops telfairi scaffold_293493:152,950-152,959 + CCATGTATTT – AAATACATGG
ENSMUSG00000068574_FCAT Orthologue Felis catus ENSMUSG00000068574_FCAT:227-236 + CCATGTACTT – AAGTACATGG
ENSMUSG00000068574_FRUB Orthologue Fugu rubripes chrUn:56,753,323-56,753,332 + CCATGTACTT – AAGTACATGG
ENSMUSG00000068574_HSAP Orthologue Homo sapiens chr7:142,703,151-142,703,160 – CCATGTATTT + AAATACATGG
ENSMUSG00000068574_LAFR Orthologue Loxodonta africana scaffold_83764:732-741 + CCATGTATTT – AAATACATGG
ENSMUSG00000068574_MDOM Orthologue Monodelphis domestica scaffold_7:2,123,777-2,123,786 – CCATGTACTT + AAGTACATGG
ENSMUSG00000068574_MMUL Orthologue Macaca mulatta SCAFFOLD5402:75,738-75,747 – GCATTTATTT + AAATAAATGC
ENSMUSG00000068574_OCUN Orthologue Oryctolagus cuniculus scaffold_203562:3,548-3,557 + TCATTTATTT – AAATAAATGA
ENSMUSG00000068574_PCAP Orthologue Procavia capensis ENSMUSG00000068574_PCAP:333-342 + CCATGTACTT – AAGTACATGG
ENSMUSG00000068574_PTRO Orthologue Pan troglodytes chr6:145,522,260-145,522,269 – CCATGTATTT + AAATACATGG
ENSMUSG00000068574_RNOR Orthologue Rattus norvegicus chr4:70,526,249-70,526,258 – CCATGTACTT + AAGTACATGG

Questions or comments: cisred@bcgsc.ca