FILTERS:
pvalue:0.1
Motif craMmus187523
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 craMmus187523
Discovery p-value 2.79E-03
Motif location chr2: 88,520,981-88,520,990 (+) (10 bp)
Search region location chr2: 88,520,073-88,521,772 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 18 species: Mus musculus, Canis familiaris, Choloepus hoffmanni, Dasypus novemcinctus, Danio rerio, Echinops telfairi, Homo sapiens, Loxodonta africana, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Procavia capensis, Pan troglodytes, Rattus norvegicus, Sorex araneus, Spermophilus tridecemlineatus, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): HOXA5(3.80E-04) ,    CUTL1(4.68E-04) ,    CUTL1(5.43E-04) ,    HNF-6(6.65E-04)
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence wwTTyATkTT AAmATrAAss
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 7 9 0 0 0 18 3 0 0 0
C 0 0 0 0 10 0 0 0 0 2
G 0 0 0 4 1 0 0 7 0 0
T 11 9 18 14 7 0 15 11 18 16
n w T T y A T n T T
1 2 3 4 5 6 7 8 9 10
A 16 18 11 15 0 7 14 18 9 11
C 0 0 7 0 0 1 4 0 0 0
G 2 0 0 0 0 10 0 0 0 0
T 0 0 0 3 18 0 0 0 9 7
A A n A T r A A w 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
ENSMUSG00000060827 Target Mus musculus chr2:88,520,981-88,520,990 + TATTGATGTT – AACATCAATA
ENSMUSG00000060827_CFAM Orthologue Canis familiaris chr18:43,724,090-43,724,099 + TTTTCAAGTT – AACTTGAAAA
ENSMUSG00000060827_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000060827_CHOF:414-423 + AATTCATTTT – AAAATGAATT
ENSMUSG00000060827_DNOV Orthologue Dasypus novemcinctus scaffold_11580:43,668-43,677 + ATTTTATGTT – AACATAAAAT
ENSMUSG00000060827_DRER Orthologue Danio rerio chr21:38,706,085-38,706,094 + TATGCATTTT – AAAATGCATA
ENSMUSG00000060827_ETEL Orthologue Echinops telfairi scaffold_281825:39,972-39,981 + TATTTATGTT – AACATAAATA
ENSMUSG00000060827_HSAP Orthologue Homo sapiens chr11:55,174,794-55,174,803 + ATTTCAATTT – AAATTGAAAT
ENSMUSG00000060827_LAFR Orthologue Loxodonta africana scaffold_15783:1,948-1,957 + AATTCATTTT – AAAATGAATT
ENSMUSG00000060827_MDOM Orthologue Monodelphis domestica scaffold_33:16,059,541-16,059,550 + TTTTCATTTT – AAAATGAAAA
ENSMUSG00000060827_MLUC Orthologue Myotis lucifugus ENSMUSG00000060827_MLUC:522-531 + TTTTCAAGTT – AACTTGAAAA
ENSMUSG00000060827_MMUL Orthologue Macaca mulatta SCAFFOLD5079:110,654-110,663 + AATTCATTTT – AAAATGAATT
ENSMUSG00000060827_PCAP Orthologue Procavia capensis ENSMUSG00000060827_PCAP:288-297 + TATGTATTTC – GAAATACATA
ENSMUSG00000060827_PTRO Orthologue Pan troglodytes chr9:56,076,820-56,076,829 + TTTTTATGTT – AACATAAAAA
ENSMUSG00000060827_RNOR Orthologue Rattus norvegicus chr3:72,585,992-72,586,001 – ATTTCATTTT + AAAATGAAAT
ENSMUSG00000060827_SARA Orthologue Sorex araneus ENSMUSG00000060827_SARA:631-640 + TATGTATTTC – GAAATACATA
ENSMUSG00000060827_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000060827_STRI:264-273 + AATTCATTTT – AAAATGAATT
ENSMUSG00000060827_TNIG Orthologue Tetraodon nigroviridis chr2:14,428,741-14,428,750 + TTTTTATGTT – AACATAAAAA
ENSMUSG00000060827_XTRO Orthologue Xenopus tropicalis scaffold_10:4,497,768-4,497,777 + TTTGTATTTT – AAAATACAAA

Questions or comments: cisred@bcgsc.ca