FILTERS:
pvalue:0.1
Motif craMmus292451
More information about this gene at Ensembl.org Go to UCSC
The contents of this page can be modified by changing your filter settings.
Currently, this page only shows information about a motif if it:
+ has a discovery p-value < 0.1
Filters based on species and motif discovery algorithms are not applied to the contents of this page.

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 craMmus292451
Discovery p-value 2.79E-03
Motif location chr17: 36,379,125-36,379,130 (+) (6 bp)
Search region location chr17: 36,378,119-36,380,280 (+) (2,162 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 17 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, 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 9 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (9 annot.): CUTL1(9.84E-05) ,    Chx10(2.02E-04) ,    POU6F1_(c2)(2.85E-04) ,    AFP1(3.32E-04) ,    aMEF-2(6.87E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
27 (CUTL1__YY1)     31 (CUTL1__POU6F1_(c2))     46 (HNF-3__POU6F1_(c2))     180 (CUTL1__HOXA5)     222 (POU6F1_(c2)__YY1)     250 (POU6F1_(c2)__RSRFC4)     254 (Cdx-2__Chx10)     271 (CUTL1__RSRFC4)     329 (CUTL1__Chx10)     437 (CUTL1__Cdx-2)     498 (Chx10__HOXA5)     525 (AFP1__Chx10)     526 (CUTL1__CUTL1)     545 (CUTL1__HNF-3)     611 (Chx10__POU1F1)     627 (AFP1__RSRFC4)     639 (Chx10__Crx)     700 (AFP1__HOXA5)     715 (CUTL1__Crx)     826 (Chx10__YY1)     880 (CUTL1__POU1F1)     881 (AFP1__CUTL1)     914 (Chx10__POU6F1_(c2))     955 (AFP1__YY1)     1069 (POU1F1__POU6F1_(c2))     1204 (AFP1__HNF-3)     1210 (Crx__POU6F1_(c2))     1394 (Chx10__Chx10)     1410 (Cdx-2__POU6F1_(c2))     1424 (Chx10__SRF)     1429 (Chx10__RSRFC4)     1441 (HOXA5__POU6F1_(c2))     1455 (CUTL1__SRF)     1503 (Chx10__HNF-3)     1517 (AFP1__POU1F1)     1547 (AFP1__Cdx-2)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence AATTTA TAAATT
Position frequency matrix
1 2 3 4 5 6
A 17 17 0 0 2 17
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 0 0 17 17 15 0
A A T T T A
1 2 3 4 5 6
A 0 15 17 17 0 0
C 0 0 0 0 0 0
G 0 0 0 0 0 0
T 17 2 0 0 17 17
T A 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
ENSMUSG00000057801 Target Mus musculus chr17:36,379,125-36,379,130 + AATTTA – TAAATT
ENSMUSG00000057801_BTAU Orthologue Bos taurus chr3:62,413,057-62,413,062 + AATTTA – TAAATT
ENSMUSG00000057801_CFAM Orthologue Canis familiaris chr6:40,889,082-40,889,087 – AATTTA + TAAATT
ENSMUSG00000057801_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000057801_CHOF:204-209 + AATTAA – TTAATT
ENSMUSG00000057801_DNOV Orthologue Dasypus novemcinctus scaffold_71203:623-628 + AATTTA – TAAATT
ENSMUSG00000057801_DRER Orthologue Danio rerio chr15:36,004,559-36,004,564 – AATTTA + TAAATT
ENSMUSG00000057801_EEUR Orthologue Erinaceus europaeus ENSMUSG00000057801_EEUR:249-254 + AATTTA – TAAATT
ENSMUSG00000057801_GGAL Orthologue Gallus gallus chr5:2,410,037-2,410,042 – AATTTA + TAAATT
ENSMUSG00000057801_HSAP Orthologue Homo sapiens chr6:29,215,271-29,215,276 – AATTTA + TAAATT
ENSMUSG00000057801_LAFR Orthologue Loxodonta africana scaffold_50537:38,160-38,165 + AATTTA – TAAATT
ENSMUSG00000057801_MDOM Orthologue Monodelphis domestica scaffold_33:16,792,099-16,792,104 – AATTTA + TAAATT
ENSMUSG00000057801_MMUL Orthologue Macaca mulatta SCAFFOLD35633:12,636-12,641 + AATTTA – TAAATT
ENSMUSG00000057801_OCUN Orthologue Oryctolagus cuniculus scaffold_185279:4,517-4,522 + AATTTA – TAAATT
ENSMUSG00000057801_PTRO Orthologue Pan troglodytes chr5:29,737,839-29,737,844 – AATTTA + TAAATT
ENSMUSG00000057801_RNOR Orthologue Rattus norvegicus chr20:189,775-189,780 – AATTTA + TAAATT
ENSMUSG00000057801_TBEL Orthologue Tupaia belangeri ENSMUSG00000057801_TBEL:167-172 + AATTAA – TTAATT
ENSMUSG00000057801_XTRO Orthologue Xenopus tropicalis scaffold_786:552,521-552,526 + AATTTA – TAAATT

Questions or comments: cisred@bcgsc.ca