Variant report

Variant	rs10512233
Chromosome Location	chr9:96050356-96050357
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	POLR2A	chr9:96048582-96052056	PFSK-1	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:96042949..96045930-chr9:96049187..96051253,2	MCF-7	breast:

Variant related genes	Relation type
WNK2	TF binding region

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10122466	0.85[AMR][1000 genomes]
rs1539670	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap]
rs16909000	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16909005	1.00[CEU][hapmap];1.00[MEX][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16909016	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16936750	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16936752	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1889339	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1891971	1.00[CEU][hapmap]
rs1891972	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs1891973	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs1970622	0.85[AMR][1000 genomes]
rs4744197	1.00[CEU][hapmap]
rs4744202	1.00[CEU][hapmap]
rs4744205	1.00[CEU][hapmap]
rs55643343	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55692827	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55706397	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55795421	0.95[EUR][1000 genomes]
rs56300939	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58895554	0.81[ASN][1000 genomes]
rs59491442	0.89[EUR][1000 genomes]
rs6479467	0.85[AMR][1000 genomes]
rs72743431	0.92[AMR][1000 genomes]
rs72743433	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72743435	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72743442	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72743443	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72743444	0.94[EUR][1000 genomes]
rs72743445	0.89[EUR][1000 genomes]
rs72743446	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72743448	0.89[EUR][1000 genomes]
rs72743449	0.94[EUR][1000 genomes]
rs72743451	0.89[EUR][1000 genomes]
rs7859604	0.85[AMR][1000 genomes]
rs7859628	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs7871272	1.00[CEU][hapmap];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893576	chr9:95789960-96158277	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv893580	chr9:95855100-96099377	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv430082	chr9:95905745-96095045	Genic enhancers Enhancers Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv893582	chr9:95963114-96116937	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893583	chr9:95996573-96091688	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv893584	chr9:96002983-96116937	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96027200-96051200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:96027200-96056000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr9:96027200-96061000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr9:96031400-96054600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr9:96031400-96055000	Weak transcription	Colonic Mucosa	Colon
6	chr9:96031400-96062800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr9:96033000-96054600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr9:96033000-96055000	Weak transcription	Brain Anterior Caudate	brain
9	chr9:96033000-96067200	Weak transcription	Brain Angular Gyrus	brain
10	chr9:96033400-96062800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr9:96033400-96067000	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr9:96033400-96077200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr9:96033600-96054600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:96033600-96060200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr9:96033600-96061000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr9:96033600-96072800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:96033800-96054600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr9:96033800-96060400	Weak transcription	Colon Smooth Muscle	Colon
19	chr9:96035800-96051600	Weak transcription	Fetal Intestine Large	intestine
20	chr9:96041000-96050400	Weak transcription	HepG2	liver
21	chr9:96041000-96052400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:96041400-96052000	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr9:96041600-96056800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr9:96041800-96054600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr9:96046400-96051800	Weak transcription	Pancreas	Pancrea
26	chr9:96047200-96065000	Weak transcription	Fetal Brain Male	brain
27	chr9:96048200-96054600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:96048200-96057200	Weak transcription	Right Atrium	heart
29	chr9:96048400-96051400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr9:96049000-96054600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr9:96049200-96052200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:96049200-96057600	Strong transcription	Fetal Brain Female	brain
33	chr9:96049400-96057000	Strong transcription	Brain Germinal Matrix	brain
34	chr9:96049600-96051400	Enhancers	Spleen	Spleen
35	chr9:96049600-96054800	Enhancers	Fetal Thymus	thymus
36	chr9:96049800-96051200	Enhancers	Fetal Heart	heart
37	chr9:96049800-96051800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr9:96049800-96052000	Weak transcription	Gastric	stomach
39	chr9:96050000-96056600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr9:96050200-96050400	Weak transcription	Left Ventricle	heart
41	chr9:96050200-96056800	Strong transcription	Fetal Intestine Small	intestine

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