FILTERS:
pvalue:0.1
Motif craMmus296203
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 craMmus296203
Discovery p-value 2.79E-03
Motif location chr16: 58,863,429-58,863,434 (-) (6 bp)
Search region location chr16: 58,862,241-58,863,969 (-) (1,729 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 19 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Danio rerio, Equus caballus, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pan troglodytes, 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 8 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (8 annot.): HMG_I(1.50E-04) ,    Lhx3a(1.80E-04) ,    Chx10(1.98E-04) ,    IPF1(4.48E-04) ,    S8(7.58E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
55 (Lhx3a__aMEF-2)     156 (HMG_I__aMEF-2)     175 (HMG_I__POU3F2)     259 (E4BP4__HMG_I)     261 (Chx10__E4BP4)     303 (Chx10__POU3F1)     305 (C-EBPgamma__Chx10)     327 (HMG_I__HNF-1alpha)     341 (HMG_I__S8)     358 (Chx10__POU2F1)     395 (Lhx3a__POU3F1)     448 (E4BP4__Lhx3a)     536 (Chx10__HNF-1alpha)     567 (HMG_I__POU2F1)     626 (HMG_I__IRF-1)     648 (HMG_I__Nkx3-1)     707 (Chx10__S8)     832 (HNF-6__Lhx3a)     1010 (Chx10__Nkx3-1)     1017 (HMG_I__Nkx6-2)     1032 (Lhx3a__Nkx6-2)     1042 (Chx10__HNF-6)     1078 (Brachyury__Chx10)     1112 (Lhx3a__S8)     1207 (Chx10__IRF-1)     1228 (C-EBPgamma__HMG_I)     1311 (Chx10__HMG_I)     1323 (IRF-1__Lhx3a)     1366 (Lhx3a__Nkx3-1)     1375 (C-EBPgamma__Lhx3a)     1394 (Chx10__Chx10)     1411 (HNF-1alpha__Lhx3a)     1442 (Chx10__POU3F2)     1445 (Lhx3a__POU2F1)     1459 (HMG_I__POU3F1)     1471 (Chx10__aMEF-2)     1489 (HMG_I__HNF-6)     1552 (Chx10__Lhx3a)     1559 (Chx10__Nkx6-2)     1589 (Lhx3a__POU3F2)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AATTAT ATAATT
Position frequency matrix
1 2 3 4 5 6
A 19 19 0 0 19 0
C 0 0 0 3 0 0
G 0 0 0 0 0 0
T 0 0 19 16 0 19
A A T T A T
1 2 3 4 5 6
A 19 0 16 19 0 0
C 0 0 0 0 0 0
G 0 0 3 0 0 0
T 0 19 0 0 19 19
A T A A 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
ENSMUSG00000060007 Target Mus musculus chr16:58,863,429-58,863,434 + AATTAT – ATAATT
ENSMUSG00000060007_BTAU Orthologue Bos taurus chr1:22,333,797-22,333,802 – AATTAT + ATAATT
ENSMUSG00000060007_CFAM Orthologue Canis familiaris chr33:8,242,799-8,242,804 – AATTAT + ATAATT
ENSMUSG00000060007_DNOV Orthologue Dasypus novemcinctus scaffold_32553:37,723-37,728 + AATTAT – ATAATT
ENSMUSG00000060007_DRER Orthologue Danio rerio chr21:38,801,152-38,801,157 – AATTAT + ATAATT
ENSMUSG00000060007_ECAB Orthologue Equus caballus ENSMUSG00000060007_ECAB:377-382 – AATTAT + ATAATT
ENSMUSG00000060007_ETEL Orthologue Echinops telfairi scaffold_264286:7,537-7,542 + AATTAT – ATAATT
ENSMUSG00000060007_HSAP Orthologue Homo sapiens chr3:99,555,122-99,555,127 – AATTAT + ATAATT
ENSMUSG00000060007_LAFR Orthologue Loxodonta africana scaffold_21417:10,359-10,364 + AATTAT – ATAATT
ENSMUSG00000060007_MDOM Orthologue Monodelphis domestica scaffold_33:18,840,872-18,840,877 – AATCAT + ATGATT
ENSMUSG00000060007_MEUG Orthologue Macropus eugenii ENSMUSG00000060007_MEUG:270-275 – AATTAT + ATAATT
ENSMUSG00000060007_MLUC Orthologue Myotis lucifugus ENSMUSG00000060007_MLUC:676-681 – AATTAT + ATAATT
ENSMUSG00000060007_MMUL Orthologue Macaca mulatta SCAFFOLD6266:17,074-17,079 – AATTAT + ATAATT
ENSMUSG00000060007_OCUN Orthologue Oryctolagus cuniculus scaffold_101312:1,072-1,077 + AATTAT – ATAATT
ENSMUSG00000060007_OGAR Orthologue Otolemur garnettii ENSMUSG00000060007_OGAR:130-135 – AATCAT + ATGATT
ENSMUSG00000060007_PTRO Orthologue Pan troglodytes chr2:100,739,108-100,739,113 – AATTAT + ATAATT
ENSMUSG00000060007_TBEL Orthologue Tupaia belangeri ENSMUSG00000060007_TBEL:287-292 – AATCAT + ATGATT
ENSMUSG00000060007_TNIG Orthologue Tetraodon nigroviridis Un_random:119,186,189-119,186,194 + AATTAT – ATAATT
ENSMUSG00000060007_XTRO Orthologue Xenopus tropicalis scaffold_504:562,358-562,363 – AATTAT + ATAATT

Questions or comments: cisred@bcgsc.ca