FILTERS:
pvalue:0.1
Motif craMmus66293
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 craMmus66293
Discovery p-value 2.79E-03
Motif location chr17: 22,254,772-22,254,781 (+) (10 bp)
Search region location chr17: 22,253,533-22,255,232 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 29 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Ovis aries, Oryctolagus cuniculus, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, 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.): E4BP4(1.13E-04) ,    Cdx-2(1.99E-04) ,    POU2F1(2.79E-04) ,    FOXP3(3.69E-04) ,    aMEF-2(5.96E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
51 (Cdx-2__FOXP1a)     69 (E4BP4__E4BP4)     340 (Cdx-2__POU3F2)     388 (E4BP4__POU2F1)     404 (E4BP4__SRY)     433 (Nkx6-2__POU2F1)     443 (HP1_site_factor__POU2F1)     460 (Cdx-2__Pax-8)     476 (E4BP4__POU3F2)     542 (CAR__Cdx-2)     578 (E4BP4__Nkx6-2)     738 (Cdx-2__Crx)     756 (POU2F1__SRY)     780 (C-EBPgamma__POU2F1)     827 (FOXP3__POU3F2)     909 (Cdx-2__SRY)     975 (C-EBPgamma__FOXP3)     998 (POU2F1__POU3F2)     999 (CAR__E4BP4)     1008 (POU2F1__Pax-8)     1020 (Crx__POU2F1)     1166 (FOXP3__Nkx6-2)     1255 (Cdx-2__Nkx6-2)     1298 (FOXP1a__POU2F1)     1392 (Cdx-2__HP1_site_factor)     1403 (C-EBPgamma__E4BP4)     1434 (E4BP4__FOXP1a)     1443 (Cdx-2__E4BP4)     1468 (C-EBPgamma__Cdx-2)     1488 (CAR__POU2F1)     1498 (E4BP4__FOXP3)     1509 (Msx-1__POU2F1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TTATATAAkA TmTTATATAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 1 29 0 29 0 29 28 0 29
C 0 1 0 0 0 3 0 0 0 0
G 0 0 0 0 0 0 0 0 16 0
T 29 27 0 29 0 26 0 1 13 0
T T A T A T A A k A
1 2 3 4 5 6 7 8 9 10
A 0 13 1 0 26 0 29 0 27 29
C 0 16 0 0 0 0 0 0 0 0
G 0 0 0 0 3 0 0 0 1 0
T 29 0 28 29 0 29 0 29 1 0
T m T T A T A T A 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
ENSMUSG00000054711 Target Mus musculus chr17:22,254,772-22,254,781 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_BTAU Orthologue Bos taurus chr25:194,825-194,834 – TTATATAATA + TATTATATAA
ENSMUSG00000054711_CFAM Orthologue Canis familiaris chr6:41,468,230-41,468,239 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000054711_CHOF:168-177 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_CJAC Orthologue Callithrix jacchus ENSMUSG00000054711_CJAC:437-446 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_CPOR Orthologue Cavia porcellus ENSMUSG00000054711_CPOR:710-719 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_DNOV Orthologue Dasypus novemcinctus scaffold_108383:5,281-5,290 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_ECAB Orthologue Equus caballus ENSMUSG00000054711_ECAB:412-421 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_EEUR Orthologue Erinaceus europaeus ENSMUSG00000054711_EEUR:351-360 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_ETEL Orthologue Echinops telfairi scaffold_247450:3,657-3,666 – TTATATAAGA + TCTTATATAA
ENSMUSG00000054711_FCAT Orthologue Felis catus ENSMUSG00000054711_FCAT:865-874 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_FRUB Orthologue Fugu rubripes chrUn:101,912,812-101,912,821 + TTATACAAGA – TCTTGTATAA
ENSMUSG00000054711_GGAL Orthologue Gallus gallus chr14:9,392,036-9,392,045 – TTATATAATA + TATTATATAA
ENSMUSG00000054711_HSAP Orthologue Homo sapiens chr16:2,593,028-2,593,037 – TTATATAATA + TATTATATAA
ENSMUSG00000054711_LAFR Orthologue Loxodonta africana scaffold_15721:6,965-6,974 – TTATATAATA + TATTATATAA
ENSMUSG00000054711_MDOM Orthologue Monodelphis domestica scaffold_49:7,594,536-7,594,545 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_MLUC Orthologue Myotis lucifugus ENSMUSG00000054711_MLUC:956-965 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_MMUL Orthologue Macaca mulatta SCAFFOLD95462:8,624-8,633 – TTATATAAGA + TCTTATATAA
ENSMUSG00000054711_OARI Orthologue Ovis aries ENSMUSG00000054711_OARI:68-77 + TAATACAAGA – TCTTGTATTA
ENSMUSG00000054711_OCUN Orthologue Oryctolagus cuniculus scaffold_124184:3,860-3,869 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_PCAP Orthologue Procavia capensis ENSMUSG00000054711_PCAP:697-706 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_PTRO Orthologue Pan troglodytes chr18:2,406,918-2,406,927 – TTATATAATA + TATTATATAA
ENSMUSG00000054711_RNOR Orthologue Rattus norvegicus chr10:13,324,602-13,324,611 + TTATATAATA – TATTATATAA
ENSMUSG00000054711_SARA Orthologue Sorex araneus ENSMUSG00000054711_SARA:826-835 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_SSCR Orthologue Sus scrofa ENSMUSG00000054711_SSCR:1,337-1,346 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000054711_STRI:672-681 + TCATATATTA – TAATATATGA
ENSMUSG00000054711_TBEL Orthologue Tupaia belangeri ENSMUSG00000054711_TBEL:987-996 + TTATATAAGA – TCTTATATAA
ENSMUSG00000054711_TNIG Orthologue Tetraodon nigroviridis chr2:4,700,193-4,700,202 + TTATACAAGA – TCTTGTATAA
ENSMUSG00000054711_XTRO Orthologue Xenopus tropicalis scaffold_254:702,289-702,298 – TTATATAAGA + TCTTATATAA

Questions or comments: cisred@bcgsc.ca