Variant report

Variant	rs59716163
Chromosome Location	chr12:104207414-104207415
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:104206123..104208804-chr12:104221926..104227695,4	K562	blood:
2	chr12:104207300..104208804-chr12:104224699..104227695,2	K562	blood:
3	chr12:104206137..104208857-chr12:104227836..104229349,2	K562	blood:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1057892	0.82[EUR][1000 genomes]
rs12422418	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12422615	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs12422701	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12423476	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12423889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12423912	0.85[EUR][1000 genomes]
rs12423994	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12424929	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12424984	0.87[EUR][1000 genomes]
rs12425283	0.85[EUR][1000 genomes]
rs12425537	1.00[AFR][1000 genomes]
rs1437505	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1550207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1550208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034593	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs17034620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034625	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034637	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034639	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034640	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034642	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034645	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034648	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034650	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17034662	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17794246	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2289258	0.81[EUR][1000 genomes]
rs3812802	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55724382	0.82[EUR][1000 genomes]
rs55736751	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55810720	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs55932227	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55949441	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55987022	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55993375	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56123042	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56143748	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56147174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56255894	0.87[EUR][1000 genomes]
rs56314567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56403068	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57173983	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59651914	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60378307	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61512578	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61748068	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7295408	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7314150	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7485127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899480	chr12:104092996-104211440	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv899481	chr12:104092996-104213731	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv899482	chr12:104092996-104218956	Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv34031	chr12:104114277-104298546	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv899483	chr12:104117462-104218956	Weak transcription ZNF genes & repeats Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv899487	chr12:104118587-104218956	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv899489	chr12:104144835-104218956	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv899490	chr12:104149022-104218956	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv560039	chr12:104177668-104455340	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104171800-104216000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr12:104173800-104208800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr12:104177800-104207600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr12:104187800-104212600	Weak transcription	GM12878-XiMat	blood
5	chr12:104191000-104209800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr12:104191000-104211800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr12:104193000-104217600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr12:104194400-104207800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr12:104194600-104214600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr12:104194600-104214800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr12:104194800-104215200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr12:104195000-104207800	Weak transcription	Fetal Lung	lung
13	chr12:104195000-104208600	Weak transcription	Left Ventricle	heart
14	chr12:104195000-104213800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr12:104195800-104208400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr12:104196400-104213600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr12:104196400-104214800	Weak transcription	Brain Substantia Nigra	brain
18	chr12:104196400-104221800	Weak transcription	Brain Anterior Caudate	brain
19	chr12:104196600-104207800	Weak transcription	HSMMtube	muscle
20	chr12:104196600-104212800	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr12:104196600-104213000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr12:104199200-104211000	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr12:104199200-104211800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr12:104199600-104214600	Weak transcription	Esophagus	oesophagus
25	chr12:104200000-104214600	Weak transcription	Ovary	ovary
26	chr12:104200200-104216200	Weak transcription	NHDF-Ad	bronchial
27	chr12:104200400-104210000	Weak transcription	Hela-S3	cervix
28	chr12:104201000-104214600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr12:104201200-104207800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr12:104201200-104207800	Weak transcription	Placenta	Placenta
31	chr12:104201200-104207800	Strong transcription	A549	lung
32	chr12:104201400-104207800	Weak transcription	Lung	lung
33	chr12:104201400-104209000	Weak transcription	HUVEC	blood vessel
34	chr12:104201400-104214800	Weak transcription	NHLF	lung
35	chr12:104201600-104212600	Weak transcription	Psoas Muscle	Psoas
36	chr12:104201800-104208600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr12:104201800-104208800	Strong transcription	HMEC	breast
38	chr12:104202000-104208800	Strong transcription	Primary B cells from cord blood	blood
39	chr12:104202200-104207800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr12:104202200-104207800	Weak transcription	Spleen	Spleen
41	chr12:104202200-104209400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr12:104202200-104218200	Weak transcription	Gastric	stomach
43	chr12:104202400-104214800	Weak transcription	Brain Hippocampus Middle	brain
44	chr12:104202600-104207600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr12:104202800-104208000	Strong transcription	HSMM	muscle
46	chr12:104203000-104208200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr12:104203600-104208200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr12:104203600-104209200	Strong transcription	NHEK	skin
49	chr12:104203800-104208600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr12:104204000-104209200	Strong transcription	Primary T cells from cord blood	blood

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