Variant report

Variant	rs565134
Chromosome Location	chr17:67332355-67332356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:67330751..67333572-chr17:73806096..73810469,4	MCF-7	breast:
2	chr17:67330688..67335128-chr17:73779500..73784988,5	MCF-7	breast:
3	chr17:67330738..67332882-chr17:67336337..67338723,2	MCF-7	breast:
4	chr17:67331323..67334222-chr17:73811179..73815189,3	MCF-7	breast:
5	chr17:67319063..67338122-chr17:73766152..73783684,87	MCF-7	breast:
6	chr17:67325454..67338838-chr17:73810118..73818942,31	MCF-7	breast:
7	chr17:67329716..67332648-chr17:73759704..73762661,4	MCF-7	breast:
8	chr17:67330643..67338460-chr17:73766924..73777114,36	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000132478	Chromatin interaction
ENSG00000263565	Chromatin interaction
ENSG00000108479	Chromatin interaction
ENSG00000266980	Chromatin interaction
ENSG00000132475	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs473487	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs482524	0.84[AFR][1000 genomes]
rs515379	0.86[CHB][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap]
rs519437	0.83[CHB][hapmap];0.93[JPT][hapmap]
rs558076	0.85[CHB][hapmap];0.88[JPT][hapmap];0.88[MEX][hapmap]
rs558102	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[GIH][hapmap];0.88[JPT][hapmap];0.90[LWK][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457889	chr17:67210992-67332355	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	n/a
2	nsv575934	chr17:67210992-67332355	ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	n/a
3	nsv833527	chr17:67240575-67400871	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv908706	chr17:67290840-67332355	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs565134	TEX2	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:67324200-67336200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr17:67328400-67341200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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