FILTERS:
pvalue:0.1
Motif craMmus68169
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 craMmus68169
Discovery p-value 2.79E-03
Motif location chr2: 37,002,811-37,002,820 (+) (10 bp)
Search region location chr2: 37,001,912-37,004,322 (+) (2,411 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 25 species: Mus musculus, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Equus caballus, Erinaceus europaeus, Echinops telfairi, Felis catus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, 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 3 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): HOXA5(5.23E-05) ,    IPF1(5.77E-04)
ORegAnno: (1 annot.): FoxA1(9.28E-04)
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence mATCAwyATT AATrsTGATk
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 15 25 0 1 24 15 0 23 0 3
C 9 0 0 19 1 0 14 0 0 3
G 1 0 0 0 0 0 0 2 0 1
T 0 0 25 5 0 10 11 0 25 18
m A T C A w y A T T
1 2 3 4 5 6 7 8 9 10
A 18 25 0 11 10 0 5 25 0 0
C 1 0 2 0 0 0 0 0 0 1
G 3 0 0 14 0 1 19 0 0 9
T 3 0 23 0 15 24 1 0 25 15
A A T r w T G A T k

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
ENSMUSG00000055838 Target Mus musculus chr2:37,002,811-37,002,820 + CATCATTATT – AATAATGATG
ENSMUSG00000055838_CJAC Orthologue Callithrix jacchus ENSMUSG00000055838_CJAC:463-472 – CATCATCATT + AATGATGATG
ENSMUSG00000055838_CPOR Orthologue Cavia porcellus ENSMUSG00000055838_CPOR:374-383 + AATCAACATT – AATGTTGATT
ENSMUSG00000055838_DNOV Orthologue Dasypus novemcinctus scaffold_35722:3,369-3,378 + AATTAACATT – AATGTTAATT
ENSMUSG00000055838_DRER Orthologue Danio rerio chr15:36,004,601-36,004,610 – AATTAATATC + GATATTAATT
ENSMUSG00000055838_ECAB Orthologue Equus caballus ENSMUSG00000055838_ECAB:405-414 + CATCATCATA – TATGATGATG
ENSMUSG00000055838_EEUR Orthologue Erinaceus europaeus ENSMUSG00000055838_EEUR:222-231 + AATCAATATT – AATATTGATT
ENSMUSG00000055838_ETEL Orthologue Echinops telfairi scaffold_291850:83,713-83,722 – CATTATTATT + AATAATAATG
ENSMUSG00000055838_FCAT Orthologue Felis catus ENSMUSG00000055838_FCAT:440-449 + GATCAACATT – AATGTTGATC
ENSMUSG00000055838_HSAP Orthologue Homo sapiens chr9:122,456,419-122,456,428 – CATCATCATT + AATGATGATG
ENSMUSG00000055838_LAFR Orthologue Loxodonta africana scaffold_31904:12,071-12,080 – AATCAATATT + AATATTGATT
ENSMUSG00000055838_MDOM Orthologue Monodelphis domestica scaffold_38:16,021,495-16,021,504 + AATTAACATA – TATGTTAATT
ENSMUSG00000055838_MEUG Orthologue Macropus eugenii ENSMUSG00000055838_MEUG:192-201 + CATTATCATG – CATGATAATG
ENSMUSG00000055838_MLUC Orthologue Myotis lucifugus ENSMUSG00000055838_MLUC:400-409 + AATCAACATT – AATGTTGATT
ENSMUSG00000055838_MMUL Orthologue Macaca mulatta SCAFFOLD36428:19,562-19,571 – AATAATTATT + AATAATTATT
ENSMUSG00000055838_OCUN Orthologue Oryctolagus cuniculus scaffold_130270:8,361-8,370 + CATCAATATC – GATATTGATG
ENSMUSG00000055838_OGAR Orthologue Otolemur garnettii ENSMUSG00000055838_OGAR:1,329-1,338 + AATCCATATT – AATATGGATT
ENSMUSG00000055838_PPYG Orthologue Pongo pygmaeus ENSMUSG00000055838_PPYG:658-667 + AATCAATATT – AATATTGATT
ENSMUSG00000055838_PTRO Orthologue Pan troglodytes chr11:107,164,471-107,164,480 – CATCATCATT + AATGATGATG
ENSMUSG00000055838_RNOR Orthologue Rattus norvegicus chr3:16,367,569-16,367,578 + AATCATTATA – TATAATGATT
ENSMUSG00000055838_SARA Orthologue Sorex araneus ENSMUSG00000055838_SARA:455-464 + AATCAACGTT – AACGTTGATT
ENSMUSG00000055838_SSCR Orthologue Sus scrofa ENSMUSG00000055838_SSCR:218-227 + CATCAACGTC – GACGTTGATG
ENSMUSG00000055838_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000055838_STRI:774-783 + AATCAACATT – AATGTTGATT
ENSMUSG00000055838_TBEL Orthologue Tupaia belangeri ENSMUSG00000055838_TBEL:532-541 + AATCAACATT – AATGTTGATT
ENSMUSG00000055838_XTRO Orthologue Xenopus tropicalis scaffold_786:438,944-438,953 + AATCATTATT – AATAATGATT

Questions or comments: cisred@bcgsc.ca