FILTERS:
pvalue:0.1
Motif craMmus394723
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 craMmus394723
Discovery p-value 2.79E-03
Motif location chr10: 129,214,185-129,214,194 (+) (10 bp)
Search region location chr10: 129,213,711-129,215,646 (+) (1,936 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 16 species: Mus musculus, Bos taurus, Canis familiaris, Dasypus novemcinctus, Echinops telfairi, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macaca mulatta, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, 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 6 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (6 annot.): MEF-2A(3.95E-05) ,    aMEF-2(4.63E-05) ,    YY1(2.77E-04) ,    RSRFC4(3.20E-04) ,    Nkx2-5(4.52E-04) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
3 (IRF-1__aMEF-2)     43 (MEF-2A__POU3F2)     53 (POU1F1__aMEF-2)     55 (Lhx3a__aMEF-2)     134 (HNF-6__MEF-2A)     140 (Evi-1__YY1)     151 (IPF1__aMEF-2)     156 (HMG_I__aMEF-2)     178 (Lhx3a__RSRFC4)     198 (HNF-1alpha__MEF-2A)     215 (HNF-1alpha__YY1)     219 (HNF-1alpha__RSRFC4)     222 (POU6F1_(c2)__YY1)     249 (HMG_I__RSRFC4)     250 (POU6F1_(c2)__RSRFC4)     265 (Chx10__MEF-2A)     317 (POU6F1_(c2)__aMEF-2)     355 (FOXP1a__aMEF-2)     399 (POU3F2__aMEF-2)     446 (Evi-1__RSRFC4)     456 (POU1F1__YY1)     562 (POU3F2__YY1)     577 (MEF-2A__OCA-B)     596 (HNF-3alpha__MEF-2A)     629 (OCA-B__YY1)     651 (Pax-8__RSRFC4)     669 (Evi-1__MEF-2A)     676 (FOXP1a__RSRFC4)     767 (HNF-1alpha__aMEF-2)     777 (RSRFC4__TEF)     793 (IRF-1__YY1)     815 (Lhx3a__YY1)     826 (Chx10__YY1)     845 (IPF1__MEF-2A)     853 (MEF-2A__MEF-2A)     869 (Evi-1__aMEF-2)     883 (TEF__YY1)     903 (TEF__aMEF-2)     934 (RSRFC4__aMEF-2)     936 (MEF-2A__RSRFC4)     937 (FOXP1a__YY1)     944 (POU3F2__RSRFC4)     946 (OCA-B__RSRFC4)     978 (MEF-2A__YY1)     986 (MEF-2A__aMEF-2)     1001 (Pax-8__YY1)     1035 (HNF-6__YY1)     1038 (IPF1__RSRFC4)     1047 (HNF-6__RSRFC4)     1106 (HNF-6__aMEF-2)     1116 (HNF-3alpha__aMEF-2)     1119 (Lhx3a__MEF-2A)     1160 (YY1__aMEF-2)     1213 (HMG_I__MEF-2A)     1241 (IPF1__YY1)     1259 (FOXP1a__MEF-2A)     1271 (MEF-2A__POU6F1_(c2))     1275 (IRF-1__MEF-2A)     1278 (Pax-8__aMEF-2)     1290 (MEF-2A__TEF)     1363 (POU1F1__RSRFC4)     1391 (OCA-B__aMEF-2)     1429 (Chx10__RSRFC4)     1435 (C-EBPdelta__aMEF-2)     1446 (IRF-1__RSRFC4)     1471 (Chx10__aMEF-2)     1504 (aMEF-2__aMEF-2)     1584 (MEF-2A__POU1F1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence ATTGTGATTT AAATCACAAT
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 16 0 4 2 0 4 16 0 3 5
C 0 0 0 0 0 1 0 0 0 0
G 0 0 3 11 0 11 0 0 0 0
T 0 16 9 3 16 0 0 16 13 11
A T w G T G A T T T
1 2 3 4 5 6 7 8 9 10
A 11 13 16 0 0 16 3 9 16 0
C 0 0 0 0 11 0 11 3 0 0
G 0 0 0 0 1 0 0 0 0 0
T 5 3 0 16 4 0 2 4 0 16
A A A T C A C w A 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
ENSMUSG00000057403 Target Mus musculus chr10:129,214,185-129,214,194 + ATGTTAATTT – AAATTAACAT
ENSMUSG00000057403_BTAU Orthologue Bos taurus chr5:35,272,787-35,272,796 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_CFAM Orthologue Canis familiaris chr27:3,059,039-3,059,048 – ATAGTAATAT + ATATTACTAT
ENSMUSG00000057403_DNOV Orthologue Dasypus novemcinctus scaffold_90588:1,347-1,356 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_ETEL Orthologue Echinops telfairi scaffold_291129:50,573-50,582 – ATAGTAATTT + AAATTACTAT
ENSMUSG00000057403_FRUB Orthologue Fugu rubripes chrUn:265,451,600-265,451,609 + ATGATGATTA – TAATCATCAT
ENSMUSG00000057403_HSAP Orthologue Homo sapiens chr12:53,975,208-53,975,217 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_LAFR Orthologue Loxodonta africana scaffold_8008:45,420-45,429 – ATAGTAATTT + AAATTACTAT
ENSMUSG00000057403_MDOM Orthologue Monodelphis domestica scaffold_33:18,898,980-18,898,989 – ATTATCATTA + TAATGATAAT
ENSMUSG00000057403_MMUL Orthologue Macaca mulatta SCAFFOLD70084:149,278-149,287 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_OCUN Orthologue Oryctolagus cuniculus scaffold_93908:1,358-1,367 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_PTRO Orthologue Pan troglodytes chr10:55,235,203-55,235,212 – ATTGTGATTT + AAATCACAAT
ENSMUSG00000057403_RNOR Orthologue Rattus norvegicus chr7:7,050,933-7,050,942 – ATGGTGATAA + TTATCACCAT
ENSMUSG00000057403_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000057403_STRI:289-298 + ATTTTGATAA – TTATCAAAAT
ENSMUSG00000057403_TBEL Orthologue Tupaia belangeri ENSMUSG00000057403_TBEL:407-416 + ATTGTGATTT – AAATCACAAT
ENSMUSG00000057403_XTRO Orthologue Xenopus tropicalis scaffold_10:4,550,149-4,550,158 – ATATTGATTA + TAATCAATAT

Questions or comments: cisred@bcgsc.ca