FILTERS:
pvalue:0.1
Motif craMmus18680
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 craMmus18680
Discovery p-value 2.79E-03
Motif location chr5: 66,456,093-66,456,104 (-) (12 bp)
Search region location chr5: 66,454,450-66,456,149 (-) (1,700 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 31 species: Mus musculus, Bos taurus, Canis familiaris, Choloepus hoffmanni, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Danio rerio, Erinaceus europaeus, Echinops telfairi, Felis catus, Fugu rubripes, Gallus gallus, Homo sapiens, Loxodonta africana, Monodelphis domestica, Macropus eugenii, Myotis lucifugus, Macaca mulatta, Oryctolagus cuniculus, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, Sorex araneus, Sus scrofa, Spermophilus tridecemlineatus, Tupaia belangeri, 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 2 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (2 annot.): AIRE(1.78E-05) ,    Chx10(2.68E-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 TTTAATTmGATk mATCkAATTAAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10 11 12
A 0 4 0 31 31 0 0 13 4 22 5 1
C 0 5 0 0 0 0 0 18 3 1 5 6
G 4 1 0 0 0 0 0 0 24 2 0 14
T 27 21 31 0 0 31 31 0 0 6 21 10
T T T A A T T m G A T k
1 2 3 4 5 6 7 8 9 10 11 12
A 10 21 6 0 0 31 31 0 0 31 21 27
C 14 0 2 24 0 0 0 0 0 0 1 4
G 6 5 1 3 18 0 0 0 0 0 5 0
T 1 5 22 4 13 0 0 31 31 0 4 0
m A T C k A A T T A A 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
ENSMUSG00000012520 Target Mus musculus chr5:66,456,093-66,456,104 + TTTAATTCGATG – CATCGAATTAAA
ENSMUSG00000012520_BTAU Orthologue Bos taurus chr6:32,773,283-32,773,294 + TTTAATTCGATG – CATCGAATTAAA
ENSMUSG00000012520_CFAM Orthologue Canis familiaris chr13:41,915,345-41,915,356 + TTTAATTCGATG – CATCGAATTAAA
ENSMUSG00000012520_CHOF Orthologue Choloepus hoffmanni ENSMUSG00000012520_CHOF:673-684 – TCTAATTAGAAT + ATTCTAATTAGA
ENSMUSG00000012520_CJAC Orthologue Callithrix jacchus ENSMUSG00000012520_CJAC:219-230 – TCTAATTAGAAT + ATTCTAATTAGA
ENSMUSG00000012520_CPOR Orthologue Cavia porcellus ENSMUSG00000012520_CPOR:174-185 – TTTAATTAGTCA + TGACTAATTAAA
ENSMUSG00000012520_DNOV Orthologue Dasypus novemcinctus scaffold_307:3,946-3,957 – GATAATTAGTTT + AAACTAATTATC
ENSMUSG00000012520_DRER Orthologue Danio rerio chr9:25,111,986-25,111,997 + TGTAATTACTCT – AGAGTAATTACA
ENSMUSG00000012520_EEUR Orthologue Erinaceus europaeus ENSMUSG00000012520_EEUR:45-56 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_ETEL Orthologue Echinops telfairi scaffold_321436:280,699-280,710 + TTTAATTCGATG – CATCGAATTAAA
ENSMUSG00000012520_FCAT Orthologue Felis catus ENSMUSG00000012520_FCAT:45-56 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_FRUB Orthologue Fugu rubripes chrUn:69,276,929-69,276,940 – TTTAATTCAATC + GATTGAATTAAA
ENSMUSG00000012520_GGAL Orthologue Gallus gallus chr4:68,909,129-68,909,140 – GATAATTAGTTT + AAACTAATTATC
ENSMUSG00000012520_HSAP Orthologue Homo sapiens chr4:41,593,202-41,593,213 + TTTAATTCGATG – CATCGAATTAAA
ENSMUSG00000012520_LAFR Orthologue Loxodonta africana scaffold_159:202,481-202,492 – TTTAATTCAATC + GATTGAATTAAA
ENSMUSG00000012520_MDOM Orthologue Monodelphis domestica scaffold_26:7,139,227-7,139,238 + TTTAATTCGCTG – CAGCGAATTAAA
ENSMUSG00000012520_MEUG Orthologue Macropus eugenii ENSMUSG00000012520_MEUG:19-30 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_MLUC Orthologue Myotis lucifugus ENSMUSG00000012520_MLUC:50-61 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_MMUL Orthologue Macaca mulatta SCAFFOLD35039:66,812-66,823 – TTTAATTACGCC + GGCGTAATTAAA
ENSMUSG00000012520_OCUN Orthologue Oryctolagus cuniculus scaffold_179272:24,054-24,065 – GATAATTAGTTT + AAACTAATTATC
ENSMUSG00000012520_OGAR Orthologue Otolemur garnettii ENSMUSG00000012520_OGAR:45-56 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_PCAP Orthologue Procavia capensis ENSMUSG00000012520_PCAP:1,164-1,175 – TTTAATTCAATC + GATTGAATTAAA
ENSMUSG00000012520_PPYG Orthologue Pongo pygmaeus ENSMUSG00000012520_PPYG:471-482 – TCTAATTAGAAT + ATTCTAATTAGA
ENSMUSG00000012520_PTRO Orthologue Pan troglodytes chr3:44,278,240-44,278,251 + TTTAATTACGCC – GGCGTAATTAAA
ENSMUSG00000012520_RNOR Orthologue Rattus norvegicus chr14:43,675,902-43,675,913 – TTTAATTCGACG + CGTCGAATTAAA
ENSMUSG00000012520_SARA Orthologue Sorex araneus ENSMUSG00000012520_SARA:172-183 – GATAATTAGTTT + AAACTAATTATC
ENSMUSG00000012520_SSCR Orthologue Sus scrofa ENSMUSG00000012520_SSCR:1,060-1,071 – TTTAATTCAATC + GATTGAATTAAA
ENSMUSG00000012520_STRI Orthologue Spermophilus tridecemlineatus ENSMUSG00000012520_STRI:45-56 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_TBEL Orthologue Tupaia belangeri ENSMUSG00000012520_TBEL:45-56 – TTTAATTCGATG + CATCGAATTAAA
ENSMUSG00000012520_TNIG Orthologue Tetraodon nigroviridis chr20:1,941,789-1,941,800 – TCTAATTAGAAT + ATTCTAATTAGA
ENSMUSG00000012520_XTRO Orthologue Xenopus tropicalis scaffold_84:1,216,519-1,216,530 – TCTAATTAGAAT + ATTCTAATTAGA

Questions or comments: cisred@bcgsc.ca