Variant report

Variant	rs4054546
Chromosome Location	chr13:37683956-37683957
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SMC3	chr13:37683119-37684139	SK-N-SH	brain:	n/a	chr13:37683404-37683418
2	STAT3	chr13:37683793-37683993	MCF10A-Er-Src	breast:	n/a	chr13:37683950-37683959 chr13:37683951-37683960

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:37683315..37684009-chr13:38175468..38176096,2	MCF-7	breast:

Variant related genes	Relation type
CSNK1A1L	TF binding region

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1009963	0.89[ASN][1000 genomes]
rs11147624	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11147625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11147626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11147627	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11147629	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11147630	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11147632	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11620134	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1199995	0.93[ASN][1000 genomes]
rs1199996	0.93[ASN][1000 genomes]
rs12583685	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12584417	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12585998	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1336754	0.93[AFR][1000 genomes]
rs1336762	0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1764480	0.91[ASN][1000 genomes]
rs1781669	0.94[ASN][1000 genomes]
rs1781670	0.94[ASN][1000 genomes]
rs1856028	0.92[YRI][hapmap];0.93[AFR][1000 genomes]
rs1856029	0.92[ASN][1000 genomes]
rs1937757	0.91[AFR][1000 genomes]
rs2078022	0.89[JPT][hapmap]
rs2243710	0.89[JPT][hapmap]
rs2323396	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2670061	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3818380	0.89[JPT][hapmap]
rs3852618	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3852619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3852620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3864999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3888918	0.92[ASN][1000 genomes]
rs3904095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3904755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3914300	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4485226	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4943438	0.81[JPT][hapmap]
rs4943439	0.81[JPT][hapmap]
rs4943440	0.89[JPT][hapmap]
rs6563510	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6563511	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7327617	0.94[ASN][1000 genomes]
rs7335490	0.89[AFR][1000 genomes]
rs7981360	0.93[ASN][1000 genomes]
rs7996099	0.92[AFR][1000 genomes]
rs7996605	0.93[ASN][1000 genomes]
rs7996662	0.93[ASN][1000 genomes]
rs8000946	0.89[JPT][hapmap]
rs8002580	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8003010	0.93[ASN][1000 genomes]
rs9315455	0.80[JPT][hapmap]
rs945632	0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs9469	0.80[JPT][hapmap]
rs954370	0.89[JPT][hapmap]
rs9547711	0.89[JPT][hapmap]
rs9547713	0.89[JPT][hapmap]
rs9566176	0.86[AFR][1000 genomes]
rs9566177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9566178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9566183	0.94[ASN][1000 genomes]
rs9566184	0.94[ASN][1000 genomes]
rs9566185	0.93[ASN][1000 genomes]
rs9566186	0.93[ASN][1000 genomes]
rs9576151	0.89[JPT][hapmap]
rs9576156	0.80[JPT][hapmap]
rs9576167	0.88[JPT][hapmap]
rs9576172	0.86[AFR][1000 genomes]
rs9576173	0.87[AFR][1000 genomes]
rs9576175	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576177	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9576178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576180	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576182	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576183	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576184	0.96[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9576185	0.82[ASN][1000 genomes]
rs9576186	0.93[ASN][1000 genomes]
rs9576187	0.93[ASN][1000 genomes]
rs9603126	0.89[JPT][hapmap]
rs9603139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948975	chr13:37281203-38280430	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:37681600-37685000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr13:37682200-37684200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
3	chr13:37682800-37684000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr13:37682800-37684000	Enhancers	Muscle Satellite Cultured Cells	--
5	chr13:37683000-37684600	Enhancers	Fetal Lung	lung
6	chr13:37683200-37684200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr13:37683400-37684000	Enhancers	Colon Smooth Muscle	Colon
8	chr13:37683400-37684200	Enhancers	Duodenum Smooth Muscle	Duodenum
9	chr13:37683400-37684200	Enhancers	Fetal Stomach	stomach
10	chr13:37683800-37701400	Weak transcription	Gastric	stomach

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