FILTERS:
pvalue:0.1
Motif craMmus114755
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 craMmus114755
Discovery p-value 2.79E-03
Motif location chr1: 165,973,335-165,973,344 (-) (10 bp)
Search region location chr1: 165,973,147-165,975,038 (-) (1,892 bp)
Assembly Mouse, Ensembl v38 (NCBI m35)
Found in 21 species: Mus musculus, Canis familiaris, Callithrix jacchus, Cavia porcellus, Dasypus novemcinctus, Erinaceus europaeus, Echinops telfairi, Felis catus, Fugu rubripes, Homo sapiens, Monodelphis domestica, Myotis lucifugus, Macaca mulatta, Otolemur garnettii, Procavia capensis, Pongo pygmaeus, Pan troglodytes, Rattus norvegicus, 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 4 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (4 annot.): YY1(8.47E-05) ,    POU3F2(5.12E-04) ,    HP1_site_factor(5.82E-04) ,    POU2F1(9.87E-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 TTTGAATATk mATATTCAAA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 6 0 1 21 21 0 20 0 0
C 1 0 0 0 0 0 0 0 0 0
G 0 0 0 20 0 0 0 0 0 8
T 20 15 21 0 0 0 21 1 21 13
T T T G A A T A T n
1 2 3 4 5 6 7 8 9 10
A 13 21 1 21 0 0 0 21 15 20
C 8 0 0 0 0 0 20 0 0 0
G 0 0 0 0 0 0 0 0 0 1
T 0 0 20 0 21 21 1 0 6 0
n A T A T T C 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
ENSMUSG00000026565 Target Mus musculus chr1:165,973,335-165,973,344 + TTTGAATATT – AATATTCAAA
ENSMUSG00000026565_CFAM Orthologue Canis familiaris chr7:34,130,763-34,130,772 + TTTGAATATT – AATATTCAAA
ENSMUSG00000026565_CJAC Orthologue Callithrix jacchus ENSMUSG00000026565_CJAC:392-401 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_CPOR Orthologue Cavia porcellus ENSMUSG00000026565_CPOR:324-333 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_DNOV Orthologue Dasypus novemcinctus scaffold_42562:39,875-39,884 + TTTGAATATT – AATATTCAAA
ENSMUSG00000026565_EEUR Orthologue Erinaceus europaeus ENSMUSG00000026565_EEUR:159-168 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_ETEL Orthologue Echinops telfairi scaffold_305994:12,485-12,494 + TTTGAATATT – AATATTCAAA
ENSMUSG00000026565_FCAT Orthologue Felis catus ENSMUSG00000026565_FCAT:1,028-1,037 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_FRUB Orthologue Fugu rubripes chrUn:203,937,434-203,937,443 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_HSAP Orthologue Homo sapiens chr1:163,921,783-163,921,792 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_MDOM Orthologue Monodelphis domestica scaffold_16:18,011,905-18,011,914 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_MLUC Orthologue Myotis lucifugus ENSMUSG00000026565_MLUC:886-895 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_MMUL Orthologue Macaca mulatta SCAFFOLD5382:52,951-52,960 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_OGAR Orthologue Otolemur garnettii ENSMUSG00000026565_OGAR:953-962 – TTTAAATTTG + CAAATTTAAA
ENSMUSG00000026565_PCAP Orthologue Procavia capensis ENSMUSG00000026565_PCAP:1,835-1,844 – TATGAATATG + CATATTCATA
ENSMUSG00000026565_PPYG Orthologue Pongo pygmaeus ENSMUSG00000026565_PPYG:1,709-1,718 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_PTRO Orthologue Pan troglodytes chr1:146,174,728-146,174,737 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_RNOR Orthologue Rattus norvegicus chr13:81,754,145-81,754,154 + TTTGAATATT – AATATTCAAA
ENSMUSG00000026565_TBEL Orthologue Tupaia belangeri ENSMUSG00000026565_TBEL:164-173 – TTTGAATATT + AATATTCAAA
ENSMUSG00000026565_TNIG Orthologue Tetraodon nigroviridis chr2:9,223,815-9,223,824 + TTTGAATATG – CATATTCAAA
ENSMUSG00000026565_XTRO Orthologue Xenopus tropicalis scaffold_1583:50,148-50,157 – CTTGAATATT + AATATTCAAG

Questions or comments: cisred@bcgsc.ca