Variant report

Variant	rs10904421
Chromosome Location	chr10:5150048-5150049
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:5140565..5143325-chr10:5148088..5150883,2	MCF-7	breast:
2	chr10:5135013..5137947-chr10:5149855..5151840,2	MCF-7	breast:
3	chr10:5149764..5151896-chr10:5189814..5192281,2	MCF-7	breast:
4	chr10:5140998..5143202-chr10:5149820..5152620,2	K562	blood:

Variant related genes	Relation type
ENSG00000196139	Chromatin interaction
ENSG00000239142	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10508293	0.84[ASN][1000 genomes]
rs10752005	1.00[JPT][hapmap]
rs10795245	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10904418	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10904422	0.89[ASN][1000 genomes]
rs10904423	0.89[ASN][1000 genomes]
rs10904428	0.87[ASN][1000 genomes]
rs11252933	0.91[ASN][1000 genomes]
rs11252938	0.95[ASN][1000 genomes]
rs11252960	0.87[ASN][1000 genomes]
rs11253038	1.00[JPT][hapmap]
rs12220572	0.87[ASN][1000 genomes]
rs12387	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12529	0.85[CHB][hapmap]
rs12775701	0.85[CHB][hapmap]
rs17134471	0.85[CHB][hapmap]
rs1937840	0.85[CHB][hapmap]
rs1937841	0.85[CHB][hapmap]
rs1937845	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1937847	0.85[CHB][hapmap]
rs1937848	0.85[CHB][hapmap]
rs1937849	0.85[CHB][hapmap]
rs1937850	0.86[ASN][1000 genomes]
rs1937901	0.81[ASN][1000 genomes]
rs1937905	0.90[ASN][1000 genomes]
rs1937916	0.85[CHB][hapmap]
rs1937922	0.85[ASN][1000 genomes]
rs1937923	0.87[ASN][1000 genomes]
rs2211630	0.85[CHB][hapmap]
rs2298305	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2398103	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2398196	0.85[CHB][hapmap]
rs2518047	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2518049	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2801882	0.85[CHB][hapmap]
rs2801883	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2895055	1.00[JPT][hapmap]
rs33921818	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs33979906	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3750566	0.95[ASN][1000 genomes]
rs3750573	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4242785	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4264066	0.89[ASN][1000 genomes]
rs4512728	0.98[ASN][1000 genomes]
rs4584484	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4584485	0.89[ASN][1000 genomes]
rs4641368	0.97[ASN][1000 genomes]
rs4880708	0.85[CHB][hapmap]
rs4880710	0.84[CHB][hapmap]
rs4881400	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4881404	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7067921	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7076063	0.84[ASN][1000 genomes]
rs7904464	0.88[EUR][1000 genomes]
rs7917546	0.99[ASN][1000 genomes]
rs878766	0.85[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:32 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv466713	chr10:4901798-5319679	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv549881	chr10:4901798-5319679	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
10	nsv1050246	chr10:4927428-5211318	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	nsv549882	chr10:4943518-5203864	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv2763913	chr10:4961021-5321407	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
13	nsv1039386	chr10:5008383-5348491	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
14	nsv1036566	chr10:5037926-5261426	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv549883	chr10:5037926-5275762	Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
16	nsv1047484	chr10:5076258-5261482	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
17	nsv1036291	chr10:5076258-5456234	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
18	nsv1042487	chr10:5090313-5196900	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
19	nsv540463	chr10:5090313-5196900	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
20	nsv540464	chr10:5108345-5196815	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
21	nsv540465	chr10:5108345-5261482	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
22	nsv540466	chr10:5114577-5196815	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
23	nsv540467	chr10:5114577-5225365	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
24	nsv540468	chr10:5114577-5261482	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
25	nsv540469	chr10:5120774-5225365	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
26	nsv540470	chr10:5120774-5261482	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
27	nsv540471	chr10:5133561-5261482	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
28	nsv540472	chr10:5133561-5284334	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
29	nsv466714	chr10:5142855-5175450	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
30	nsv549885	chr10:5142855-5175450	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
31	nsv1047686	chr10:5148453-5185582	Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
32	nsv1048081	chr10:5149144-5321395	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5137400-5151600	Weak transcription	Brain Angular Gyrus	brain
2	chr10:5137400-5151800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr10:5137400-5152000	Weak transcription	Right Ventricle	heart
4	chr10:5137800-5150800	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr10:5138200-5151000	Weak transcription	Osteobl	bone
6	chr10:5138200-5151800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr10:5138600-5150200	Weak transcription	Brain Hippocampus Middle	brain
8	chr10:5138600-5151800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr10:5138800-5151800	Weak transcription	Brain Anterior Caudate	brain
10	chr10:5138800-5151800	Weak transcription	Colonic Mucosa	Colon
11	chr10:5138800-5152000	Weak transcription	Psoas Muscle	Psoas
12	chr10:5139000-5151600	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr10:5140200-5150400	Strong transcription	Duodenum Mucosa	Duodenum
14	chr10:5145200-5151400	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr10:5146000-5150400	Weak transcription	Fetal Intestine Small	intestine
16	chr10:5146000-5151600	Weak transcription	Hela-S3	cervix
17	chr10:5146000-5151800	Weak transcription	Esophagus	oesophagus
18	chr10:5146000-5157600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr10:5147400-5150200	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:5147400-5150200	Strong transcription	Skeletal Muscle Female	skeletal muscle
21	chr10:5147800-5150600	Strong transcription	Aorta	Aorta
22	chr10:5147800-5151400	Strong transcription	Rectal Mucosa Donor 31	rectum
23	chr10:5148000-5150400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr10:5148000-5150400	Strong transcription	HSMMtube	muscle
25	chr10:5148200-5150200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr10:5148200-5150400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:5148400-5151000	Strong transcription	Adipose Nuclei	Adipose
28	chr10:5148400-5151400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:5148400-5151400	Weak transcription	HMEC	breast
30	chr10:5148400-5151600	Weak transcription	Left Ventricle	heart
31	chr10:5148400-5151600	Weak transcription	Lung	lung
32	chr10:5148400-5151800	Weak transcription	Ovary	ovary
33	chr10:5148600-5151600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:5148600-5151800	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr10:5148600-5152000	Strong transcription	Liver	Liver
36	chr10:5148600-5152600	Weak transcription	NHDF-Ad	bronchial
37	chr10:5148600-5160200	Weak transcription	Stomach Mucosa	stomach
38	chr10:5148800-5153400	Weak transcription	Gastric	stomach
39	chr10:5149000-5150800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr10:5149600-5150400	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr10:5149600-5150600	Strong transcription	Thymus	Thymus
42	chr10:5149600-5152000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr10:5149600-5152000	Genic enhancers	A549	lung
44	chr10:5149600-5155000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr10:5149800-5150200	Strong transcription	Pancreas	Pancrea
46	chr10:5149800-5151600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr10:5150000-5150200	Genic enhancers	HepG2	liver
48	chr10:5150000-5150600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr10:5150000-5151600	Weak transcription	Rectal Mucosa Donor 29	rectum

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