Variant report

Variant	rs10191859
Chromosome Location	chr2:189871475-189871476
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	chr2:189870624-189871642	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
COL3A1	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10168216	0.94[AFR][1000 genomes]
rs10194304	0.94[AFR][1000 genomes]
rs10194475	0.94[AFR][1000 genomes]
rs10201930	1.00[CEU][hapmap];0.86[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10208311	1.00[CEU][hapmap];0.85[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10497696	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13306260	1.00[EUR][1000 genomes]
rs13425379	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16830969	1.00[CEU][hapmap]
rs16830983	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16830984	1.00[CEU][hapmap];0.81[LWK][hapmap];0.82[MKK][hapmap];1.00[EUR][1000 genomes]
rs16831014	1.00[CEU][hapmap]
rs28413125	1.00[EUR][1000 genomes]
rs41263781	1.00[EUR][1000 genomes]
rs41265547	0.85[AMR][1000 genomes]
rs41272837	1.00[EUR][1000 genomes]
rs61112771	1.00[EUR][1000 genomes]
rs6711327	1.00[EUR][1000 genomes]
rs6730236	1.00[CEU][hapmap]
rs6741242	1.00[EUR][1000 genomes]
rs6752549	1.00[EUR][1000 genomes]
rs73047634	1.00[EUR][1000 genomes]
rs7567045	1.00[EUR][1000 genomes]
rs7600151	1.00[EUR][1000 genomes]
rs7607614	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs8224	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875610	chr2:189796272-189904674	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv875612	chr2:189841052-189878769	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv584060	chr2:189844000-189876138	Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv584061	chr2:189844000-189878769	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189841800-189875200	Weak transcription	Colonic Mucosa	Colon
2	chr2:189843600-189874200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr2:189847600-189879200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr2:189849400-189877600	Strong transcription	Placenta	Placenta
5	chr2:189849600-189876200	Strong transcription	Stomach Smooth Muscle	stomach
6	chr2:189850400-189877200	Weak transcription	Right Ventricle	heart
7	chr2:189851800-189877200	Strong transcription	Colon Smooth Muscle	Colon
8	chr2:189851800-189878000	Strong transcription	HSMM	muscle
9	chr2:189852000-189877400	Strong transcription	Adipose Nuclei	Adipose
10	chr2:189853200-189874800	Strong transcription	Duodenum Smooth Muscle	Duodenum
11	chr2:189853800-189875200	Strong transcription	NHLF	lung
12	chr2:189854000-189878200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr2:189854200-189876800	Strong transcription	Fetal Lung	lung
14	chr2:189855600-189872800	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr2:189856200-189874200	Strong transcription	Ovary	ovary
16	chr2:189856800-189875400	Weak transcription	Spleen	Spleen
17	chr2:189857200-189875200	Weak transcription	Small Intestine	intestine
18	chr2:189864400-189877400	Strong transcription	Placenta Amnion	Placenta Amnion
19	chr2:189865200-189874800	Strong transcription	NHDF-Ad	bronchial
20	chr2:189865800-189873200	Strong transcription	Fetal Stomach	stomach
21	chr2:189866400-189879200	Weak transcription	Gastric	stomach
22	chr2:189866600-189872200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr2:189866600-189875400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:189866600-189876200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr2:189866600-189878000	Strong transcription	Osteobl	bone
26	chr2:189867200-189874000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr2:189867400-189876000	Strong transcription	HSMMtube	muscle
28	chr2:189867400-189878000	Strong transcription	Muscle Satellite Cultured Cells	--
29	chr2:189867600-189874000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr2:189867600-189878400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr2:189868200-189877200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr2:189868800-189871600	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr2:189869000-189878000	Weak transcription	Fetal Intestine Small	intestine
34	chr2:189869200-189877800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr2:189869200-189877800	Strong transcription	Fetal Muscle Trunk	muscle
36	chr2:189869200-189878800	Weak transcription	Pancreas	Pancrea
37	chr2:189870800-189873200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr2:189870800-189875600	Weak transcription	Esophagus	oesophagus
39	chr2:189871000-189871600	Strong transcription	Rectal Smooth Muscle	rectum
40	chr2:189871000-189874000	Strong transcription	Left Ventricle	heart
41	chr2:189871000-189876400	Strong transcription	NH-A	brain
42	chr2:189871200-189871600	Strong transcription	Fetal Kidney	kidney
43	chr2:189871200-189872000	Weak transcription	Aorta	Aorta
44	chr2:189871200-189873400	Weak transcription	Fetal Intestine Large	intestine
45	chr2:189871200-189877800	Strong transcription	Fetal Muscle Leg	muscle

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