FILTERS:
pvalue:0.1
Motif craMmus303518
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 craMmus303518
Discovery p-value 2.79E-03
Motif location chr2: 111,142,603-111,142,614 (+) (12 bp)
Search region location chr2: 111,141,557-111,143,256 (+) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 22 species: Mus musculus, Bos taurus, Choloepus hoffmanni, Callithrix jacchus, Dasypus novemcinctus, Erinaceus europaeus, Echinops telfairi, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, 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: (3 annot.): Lhx3a(1.80E-04) ,    IPF1(2.11E-04) ,    HOXA5(3.61E-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 TATGwAnCAATT AATTGnTsCATA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 5 16 0 0 10 21 9 3 18 22 7 0
C 0 5 0 0 4 0 0 14 4 0 0 0
G 0 1 0 22 0 1 6 1 0 0 1 0
T 17 0 22 0 8 0 7 4 0 0 14 22
T A T G w A n C A A T T
1 2 3 4 5 6 7 8 9 10 11 12
A 22 14 0 0 4 7 0 8 0 22 0 17
C 0 1 0 0 1 6 1 0 22 0 1 0
G 0 0 0 4 14 0 0 4 0 0 5 0
T 0 7 22 18 3 9 21 10 0 0 16 5
A A T T G n T w C A T A

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
ENSMUSG00000068647 Target Mus musculus chr2:111,142,603-111,142,614 + TCTGAATTAATT – AATTAATTCAGA
ENSMUSG00000068647_BTAU Orthologue Bos taurus chr10:22,120,257-22,120,268 – TATGAATAAAAT + ATTTTATTCATA
ENSMUSG00000068647_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000068647_CHOF:366-377 + TATGCAACAATT – AATTGTTGCATA
ENSMUSG00000068647_CJAC Orthologue Callithrix jacchus ENSMUSG00000068647_CJAC:280-291 + TATGTAGCAATT – AATTGCTACATA
ENSMUSG00000068647_DNOV Orthologue Dasypus novemcinctus scaffold_84730:790-801 – TATGAAGCAAAT + ATTTGCTTCATA
ENSMUSG00000068647_EEUR Orthologue Erinaceus europaeus ENSMUSG00000068647_EEUR:561-572 + TATGTAGCAATT – AATTGCTACATA
ENSMUSG00000068647_ETEL Orthologue Echinops telfairi scaffold_214671:10,985-10,996 – AATGCAACAATT + AATTGTTGCATT
ENSMUSG00000068647_FRUB Orthologue Fugu rubripes chrUn:198,144,112-198,144,123 + TCTGTAAACATT – AATGTTTACAGA
ENSMUSG00000068647_GGAL Orthologue Gallus gallus chr27:28,054-28,065 + AATGAATTAAAT – ATTTAATTCATT
ENSMUSG00000068647_HSAP Orthologue Homo sapiens chr15:100,162,721-100,162,732 – ACTGAAGCAATT + AATTGCTTCAGT
ENSMUSG00000068647_LAFR Orthologue Loxodonta africana scaffold_101392:5,077-5,088 + TATGTAACAATT – AATTGTTACATA
ENSMUSG00000068647_MMUL Orthologue Macaca mulatta SCAFFOLD51237:3,889-3,900 + TCTGAAGCAAAT – ATTTGCTTCAGA
ENSMUSG00000068647_OCUN Orthologue Oryctolagus cuniculus scaffold_123764:2,392-2,403 – AATGTATGCAGT + ACTGCATACATT
ENSMUSG00000068647_OGAR Orthologue Otolemur garnettii ENSMUSG00000068647_OGAR:367-378 – TATGCATTCATT + AATGAATGCATA
ENSMUSG00000068647_PCAP Orthologue Procavia capensis ENSMUSG00000068647_PCAP:423-434 + TATGTAACAATT – AATTGTTACATA
ENSMUSG00000068647_PPYG Orthologue Pongo pygmaeus ENSMUSG00000068647_PPYG:372-383 + TATGTGACAATT – AATTGTCACATA
ENSMUSG00000068647_PTRO Orthologue Pan troglodytes 19_random:14,242,363-14,242,374 – AATGAAGCAAAT + ATTTGCTTCATT
ENSMUSG00000068647_RNOR Orthologue Rattus norvegicus chr3:96,771,723-96,771,734 + TCTGAATTAATT – AATTAATTCAGA
ENSMUSG00000068647_SSCR Orthologue Sus scrofa ENSMUSG00000068647_SSCR:678-689 + TATGAAACAAAT – ATTTGTTTCATA
ENSMUSG00000068647_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000068647_STRI:290-301 + TATGAATCCAAT – ATTGGATTCATA
ENSMUSG00000068647_TBEL Orthologue Tupaia belangeri ENSMUSG00000068647_TBEL:240-251 + TATGTAACAATT – AATTGTTACATA
ENSMUSG00000068647_XTRO Orthologue Xenopus tropicalis scaffold_786:71,908-71,919 + TGTGCAAAAATT – AATTTTTGCACA

Questions or comments: cisred@bcgsc.ca