FILTERS:
pvalue:0.1
Motif craMmus399043
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 craMmus399043
Discovery p-value 2.79E-03
Motif location chr2: 87,299,969-87,299,976 (+) (8 bp)
Search region location chr2: 87,299,301-87,301,082 (+) (1,782 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 21 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Oryctolagus cuniculus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, Tetraodon nigroviridis
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.): RSRFC4(2.74E-04) ,    RSRFC4(3.26E-04) ,    CUTL1(3.35E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
27 (CUTL1__YY1)     44 (CUTL1__Evi-1)     58 (RSRFC4__Sox5)     91 (Cdx-2__RSRFC4)     130 (Msx-1__RSRFC4)     138 (FOXJ2__RSRFC4)     332 (CUTL1__HNF-6)     382 (C-EBPbeta__RSRFC4)     391 (CUTL1__POU3F2)     393 (CUTL1__POU2F1)     437 (CUTL1__Cdx-2)     446 (Evi-1__RSRFC4)     579 (CUTL1__FXR)     647 (RSRFC4__STAT5A)     685 (C-EBPbeta__CUTL1)     775 (RSRFC4__YY1)     787 (CUTL1__aMEF-2)     821 (CUTL1__HNF-3alpha)     887 (CUTL1__FOXJ2)     912 (CUTL1__IRF-7A)     934 (RSRFC4__aMEF-2)     936 (MEF-2A__RSRFC4)     944 (POU3F2__RSRFC4)     947 (CUTL1__STAT5A)     989 (POU2F1__RSRFC4)     1029 (Pbx1a__RSRFC4)     1047 (HNF-6__RSRFC4)     1065 (CUTL1__Msx-1)     1111 (IRF-7A__RSRFC4)     1122 (CUTL1__Pbx1a)     1165 (CUTL1__FOXD3)     1293 (FOXD3__RSRFC4)     1407 (CUTL1__MEF-2A)     1463 (CUTL1__Sox5)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence wATACATr yATGTATs
Position frequency matrix
1 2 3 4 5 6 7 8
A 13 18 0 14 1 21 0 13
C 0 0 0 0 20 0 0 0
G 0 1 0 0 0 0 0 8
T 8 2 21 7 0 0 21 0
n A T A C A T n
1 2 3 4 5 6 7 8
A 0 21 0 0 7 21 2 8
C 8 0 0 0 0 0 1 0
G 0 0 0 20 0 0 0 0
T 13 0 21 1 14 0 18 13
n A T G T A T n

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
ENSMUSG00000058194 Target Mus musculus chr2:87,299,969-87,299,976 + TATTCATA – TATGAATA
ENSMUSG00000058194_BTAU Orthologue Bos taurus chr2:606,712-606,719 – AATACATG + CATGTATT
ENSMUSG00000058194_CFAM Orthologue Canis familiaris chr18:43,004,741-43,004,748 + AATTCATA – TATGAATT
ENSMUSG00000058194_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000058194_CHOF:290-297 + TTTTCATA – TATGAAAA
ENSMUSG00000058194_CPOR Orthologue Cavia porcellus ENSMUSG00000058194_CPOR:315-322 – AATACATA + TATGTATT
ENSMUSG00000058194_DNOV Orthologue Dasypus novemcinctus scaffold_90506:5,172-5,179 – TATTCATA + TATGAATA
ENSMUSG00000058194_DRER Orthologue Danio rerio chr21:14,187,382-14,187,389 + TATACATG – CATGTATA
ENSMUSG00000058194_EEUR Orthologue Erinaceus europaeus ENSMUSG00000058194_EEUR:207-214 – AATACATG + CATGTATT
ENSMUSG00000058194_ETEL Orthologue Echinops telfairi scaffold_240389:10,481-10,488 + TATTCATA – TATGAATA
ENSMUSG00000058194_FRUB Orthologue Fugu rubripes chrUn:294,179,925-294,179,932 – AATTCATG + CATGAATT
ENSMUSG00000058194_HSAP Orthologue Homo sapiens chr11:55,492,437-55,492,444 + AATACATA – TATGTATT
ENSMUSG00000058194_LAFR Orthologue Loxodonta africana scaffold_144:36,692-36,699 + TATACATA – TATGTATA
ENSMUSG00000058194_MDOM Orthologue Monodelphis domestica scaffold_33:17,378,561-17,378,568 + TATACATA – TATGTATA
ENSMUSG00000058194_MEUG Orthologue Macropus eugenii ENSMUSG00000058194_MEUG:524-531 – AATACATA + TATGTATT
ENSMUSG00000058194_OCUN Orthologue Oryctolagus cuniculus scaffold_110707:14,295-14,302 + AATACATG – CATGTATT
ENSMUSG00000058194_PTRO Orthologue Pan troglodytes 9_random:27,135,583-27,135,590 + AATACATA – TATGTATT
ENSMUSG00000058194_RNOR Orthologue Rattus norvegicus chr3:71,034,606-71,034,613 – AATACATG + CATGTATT
ENSMUSG00000058194_SARA Orthologue Sorex araneus ENSMUSG00000058194_SARA:271-278 – TATTAATA + TATTAATA
ENSMUSG00000058194_SSCR Orthologue Sus scrofa ENSMUSG00000058194_SSCR:622-629 – AATACATG + CATGTATT
ENSMUSG00000058194_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000058194_STRI:367-374 – AGTACATG + CATGTACT
ENSMUSG00000058194_TNIG Orthologue Tetraodon nigroviridis Un_random:126,487,301-126,487,308 + ATTACATA – TATGTAAT

Questions or comments: cisred@bcgsc.ca