Variant report

Variant	rs17034620
Chromosome Location	chr12:104211278-104211279
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:104208263..104213427-chr12:104233273..104236383,5	K562	blood:
2	chr12:104209730..104211808-chr12:104212200..104214278,2	K562	blood:
3	chr12:104208479..104212455-chr12:104217163..104218930,3	MCF-7	breast:
4	chr12:104211017..104213331-chr12:104233346..104236499,3	MCF-7	breast:
5	chr12:104207954..104212094-chr12:104233273..104237214,4	K562	blood:

Variant related genes	Relation type
ENSG00000257327	Chromatin interaction
ENSG00000111696	Chromatin interaction
ENSG00000257754	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1057892	0.84[EUR][1000 genomes]
rs11111802	0.88[ASN][1000 genomes]
rs12422418	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12422615	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12422701	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12423476	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12423889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12423912	0.87[EUR][1000 genomes]
rs12423994	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12424929	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12424984	0.90[EUR][1000 genomes]
rs12425283	0.87[EUR][1000 genomes]
rs12425537	1.00[AFR][1000 genomes]
rs1437505	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1550207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1550208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034593	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs17034625	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034637	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034639	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034640	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17034642	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034645	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034648	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034650	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17034662	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17794246	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs2289258	0.83[EUR][1000 genomes]
rs3812802	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55724382	0.84[EUR][1000 genomes]
rs55736751	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55810720	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs55932227	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55949441	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55987022	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55993375	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56123042	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56143748	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56147174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56255894	0.90[EUR][1000 genomes]
rs56314567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56403068	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57173983	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59651914	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59716163	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60378307	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61512578	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61748068	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7295408	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7314150	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7485127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[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:78 , 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	chr12:104187800-104212600	Weak transcription	GM12878-XiMat	blood
3	chr12:104191000-104211800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr12:104193000-104217600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr12:104194600-104214600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr12:104194600-104214800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr12:104194800-104215200	Weak transcription	Duodenum Mucosa	Duodenum
8	chr12:104195000-104213800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr12:104196400-104213600	Weak transcription	Brain Cingulate Gyrus	brain
10	chr12:104196400-104214800	Weak transcription	Brain Substantia Nigra	brain
11	chr12:104196400-104221800	Weak transcription	Brain Anterior Caudate	brain
12	chr12:104196600-104212800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr12:104196600-104213000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr12:104199200-104211800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr12:104199600-104214600	Weak transcription	Esophagus	oesophagus
16	chr12:104200000-104214600	Weak transcription	Ovary	ovary
17	chr12:104200200-104216200	Weak transcription	NHDF-Ad	bronchial
18	chr12:104201000-104214600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr12:104201400-104214800	Weak transcription	NHLF	lung
20	chr12:104201600-104212600	Weak transcription	Psoas Muscle	Psoas
21	chr12:104202200-104218200	Weak transcription	Gastric	stomach
22	chr12:104202400-104214800	Weak transcription	Brain Hippocampus Middle	brain
23	chr12:104204000-104214600	Weak transcription	Fetal Intestine Small	intestine
24	chr12:104205800-104214600	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr12:104207200-104212600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr12:104207200-104215400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr12:104207400-104217200	Weak transcription	Fetal Intestine Large	intestine
28	chr12:104207600-104214600	Weak transcription	Fetal Muscle Leg	muscle
29	chr12:104208000-104212600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr12:104208000-104213800	Weak transcription	HSMM	muscle
31	chr12:104208000-104214600	Weak transcription	Lung	lung
32	chr12:104208000-104214800	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr12:104208000-104215000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr12:104208000-104215000	Weak transcription	NH-A	brain
35	chr12:104208200-104211400	Weak transcription	Fetal Muscle Trunk	muscle
36	chr12:104208200-104212800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr12:104208200-104212800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr12:104208200-104212800	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr12:104208200-104213200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr12:104208200-104214600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr12:104208200-104214600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr12:104208200-104214600	Weak transcription	Fetal Stomach	stomach
43	chr12:104208200-104214800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr12:104208200-104214800	Weak transcription	Primary B cells from peripheral blood	blood
45	chr12:104208200-104214800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr12:104208200-104214800	Weak transcription	Placenta	Placenta
47	chr12:104208200-104221800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr12:104208200-104223200	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr12:104208200-104227800	Weak transcription	Pancreas	Pancrea
50	chr12:104208400-104212600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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