FILTERS:
pvalue:0.1
Motif craHsap135044
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 craHsap135044
Discovery p-value 1.02E-04
Motif location chr19: 40,795,470-40,795,479 (+) (10 bp)
Search region location chr19: 40,792,555-40,795,686 (+) (3,132 bp)
Assembly Human, Ensembl v40 (NCBI 36)
Found in 19 species: Pan troglodytes, Pongo pygmaeus, Macaca mulatta, Sus scrofa, Tursiops truncatus, Echinops telfairi, Bos taurus, Otolemur garnettii, Canis familiaris, Equus caballus, Tupaia belangeri, Dasypus novemcinctus, Sorex araneus, Oryctolagus cuniculus, Cavia porcellus, Mus musculus, Rattus norvegicus, Spermophilus tridecemlineatus, Homo sapiens
Found with
'De Novo' motif group ID This motif was not submitted for clustering.
Similar to
(annotation p-value)		 There are 14 annotation(s) with p-values below 0.001.
JASPAR: (0 annot.): none
TRANSFAC: (14 annot.): ATF(2.67E-06) ,    ATF4(2.92E-06) ,    ATF-1(4.79E-06) ,    ATF3(8.95E-06) ,    CREB(1.52E-05) ...
ORegAnno: (0 annot.): none
Modules
(Co-occurring motif patterns)		 Annotation-based:
35 (ATF-1__E4F1)     67 (ATF6__NF-E2)     123 (ATF__ATF4)     141 (ATF__ATF-1)     176 (AP-1__ATF4)     198 (ATF__CREB)     199 (ATF-1__RFX1)     219 (AP-1__ATF)     309 (ATF4__C-EBPgamma)     310 (NF-E2__XBP-1)     311 (CREB__XBP-1)     402 (E4F1__NF-E2)     423 (ATF-1__CREB)     424 (ATF6__CREB)     450 (ATF3__C-EBPgamma)     530 (120-kDa_CRE-binding_protein__120-kDa_CRE-binding_protein)     547 (ATF4__XBP-1)     554 (CREB__RFX1)     597 (ATF-1__ATF6)     625 (ATF3__NF-E2)     785 (120-kDa_CRE-binding_protein__RFX1)     861 (ATF__ATF3)     865 (ATF3__XBP-1)     868 (120-kDa_CRE-binding_protein__NF-E2)     873 (ATF4__RFX1)     874 (120-kDa_CRE-binding_protein__ATF)     896 (120-kDa_CRE-binding_protein__AP-1)     914 (AP-1__ATF3)     965 (120-kDa_CRE-binding_protein__XBP-1)     970 (120-kDa_CRE-binding_protein__E4F1)     1005 (ATF4__CREB)     1039 (ATF3__ATF6)     1072 (ATF-1__ATF3)     1076 (120-kDa_CRE-binding_protein__ATF4)     1084 (NF-E2__NF-E2)     1148 (ATF__E4F1)     1150 (ATF4__ATF6)     1162 (CREB__NF-E2)     1230 (ATF3__ATF3)     1270 (NF-E2__RFX1)     1282 (AP-1__NF-E2)     1300 (C-EBPgamma__CREB)     1356 (ATF4__E4F1)     1426 (ATF__ATF6)     1464 (ATF-1__ATF-1)     1489 (ATF6__E4F1)     1504 (ATF6__RFX1)     1507 (ATF-1__NF-E2)     1529 (ATF-1__XBP-1)     1535 (ATF4__NF-E2)     1712 (AP-1__ATF6)     1743 (ATF3__E4F1)     1788 (AP-1__CREB)     1812 (ATF__ATF)     1822 (ATF__RFX1)     1825 (120-kDa_CRE-binding_protein__CREB)     1857 (C-EBPgamma__RFX1)     1858 (120-kDa_CRE-binding_protein__ATF3)     1881 (ATF-1__ATF4)     1903 (ATF3__ATF4)     1928 (ATF__XBP-1)     1965 (ATF6__XBP-1)     2071 (CREB__E4F1)     2095 (ATF6__ATF6)     2191 (120-kDa_CRE-binding_protein__ATF-1)     2198 (120-kDa_CRE-binding_protein__ATF6)     2529 (120-kDa_CRE-binding_protein__C-EBPgamma)     2547 (ATF__NF-E2)     2602 (ATF4__ATF4)     2606 (ATF3__RFX1)     2713 (ATF3__CREB)     2737 (AP-1__ATF-1)    

No 'de novo' modules exist in this database.

Sequence Conservation
Sequence logo (+)motif (-)motif
Consensus sequence TGACGTCAGA TCTGACGTCA
Position frequency matrix
1 2 3 4 5 6 7 8 9 10
A 0 0 19 0 0 0 0 19 1 17
C 0 0 0 19 0 0 19 0 1 0
G 0 19 0 0 19 0 0 0 14 1
T 19 0 0 0 0 19 0 0 3 1
T G A C G T C A G A
1 2 3 4 5 6 7 8 9 10
A 1 3 0 0 19 0 0 0 0 19
C 1 14 0 0 0 19 0 0 19 0
G 0 1 0 19 0 0 19 0 0 0
T 17 1 19 0 0 0 0 19 0 0
T C T G A C G T C 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
ENSG00000089336_PTRO Orthologue Pan troglodytes chr20:37,625,869-37,625,878 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_PPYG Orthologue Pongo pygmaeus ENSG00000089336_PPYG:2,925-2,934 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_MMUL Orthologue Macaca mulatta chr19:42,099,625-42,099,634 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_SSCR Orthologue Sus scrofa ENSG00000089336_SSCR:49-58 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_TTRU Orthologue Tursiops truncatus ENSG00000089336_TTRU:75-84 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_ETEL Orthologue Echinops telfairi scaffold_173391:940-949 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_BTAU Orthologue Bos taurus chr18:42,238,284-42,238,293 – TGACGTCAGA + TCTGACGTCA
ENSG00000089336_OGAR Orthologue Otolemur garnettii ENSG00000089336_OGAR:208-217 + TGACGTCAAA – TTTGACGTCA
ENSG00000089336_CFAM Orthologue Canis familiaris chr1:119,910,469-119,910,478 – TGACGTCAGA + TCTGACGTCA
ENSG00000089336_ECAB Orthologue Equus caballus ENSG00000089336_ECAB:811-820 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_TBEL Orthologue Tupaia belangeri ENSG00000089336_TBEL:88-97 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336_DNOV Orthologue Dasypus novemcinctus scaffold_77252:8,090-8,099 – TGACGTCAGG + CCTGACGTCA
ENSG00000089336_SARA Orthologue Sorex araneus ENSG00000089336_SARA:34-43 + TGACGTCACT – AGTGACGTCA
ENSG00000089336_OCUN Orthologue Oryctolagus cuniculus scaffold_110231:4,527-4,536 – TGACGTCAGA + TCTGACGTCA
ENSG00000089336_CPOR Orthologue Cavia porcellus ENSG00000089336_CPOR:27-36 + TGACGTCATA – TATGACGTCA
ENSG00000089336_MMUS Orthologue Mus musculus chr7:30,373,752-30,373,761 – TGACGTCATA + TATGACGTCA
ENSG00000089336_RNOR Orthologue Rattus norvegicus chr1:85,717,492-85,717,501 – TGACGTCATA + TATGACGTCA
ENSG00000089336_STRI Orthologue Spermophilus tridecemlineatus ENSG00000089336_STRI:130-139 + TGACGTCAGA – TCTGACGTCA
ENSG00000089336 Target Homo sapiens chr19:40,795,470-40,795,479 + TGACGTCAGA – TCTGACGTCA

Questions or comments: cisred@bcgsc.ca