Variant report

Variant	rs4713774
Chromosome Location	chr6:34337653-34337654
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34335584..34339226-chr6:34339692..34345370,5	K562	blood:
2	chr6:34335526..34338425-chr6:34359180..34360853,3	MCF-7	breast:
3	chr6:34336783..34339574-chr6:34360212..34362846,3	K562	blood:
4	chr6:34336023..34338003-chr6:34357501..34359863,2	K562	blood:
5	chr6:34337455..34341004-chr6:34341961..34344805,4	K562	blood:

Variant related genes	Relation type
ENSG00000272325	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12662460	0.88[ASN][1000 genomes]
rs12664001	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12665397	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1573905	1.00[CEU][hapmap]
rs16885998	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16889706	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16889714	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs206919	0.82[JPT][hapmap]
rs206921	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs206936	0.86[JPT][hapmap]
rs206941	0.80[CHB][hapmap]
rs2071928	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28847046	0.81[ASN][1000 genomes]
rs34384951	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3778077	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3798560	0.82[JPT][hapmap]
rs3798562	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3798564	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3800476	0.81[AMR][1000 genomes]
rs3800477	0.81[AMR][1000 genomes]
rs414739	0.83[JPT][hapmap]
rs464553	0.82[JPT][hapmap]
rs4711390	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4713766	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs4713770	0.82[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4713772	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4713773	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713775	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713776	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713777	0.87[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4713780	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4713781	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4713783	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4713784	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs4713787	0.84[AMR][1000 genomes]
rs568502	0.80[CHB][hapmap]
rs58648597	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59310759	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60100381	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62399909	0.88[ASN][1000 genomes]
rs6909732	1.00[CEU][hapmap]
rs6912971	0.82[JPT][hapmap]
rs6924682	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6925243	0.83[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs6935129	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7752035	0.96[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7767431	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7775635	0.81[ASN][1000 genomes]
rs9394200	1.00[CEU][hapmap]
rs9766229	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1034978	chr6:34327526-34362187	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr6:34309800-34347200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:34315400-34351200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:34318200-34355800	Weak transcription	Brain Germinal Matrix	brain
4	chr6:34320400-34350400	Weak transcription	Esophagus	oesophagus
5	chr6:34327000-34351600	Weak transcription	Ovary	ovary
6	chr6:34327600-34342200	Weak transcription	Fetal Kidney	kidney
7	chr6:34327800-34356400	Weak transcription	Hela-S3	cervix
8	chr6:34328000-34342000	Weak transcription	Fetal Brain Female	brain
9	chr6:34328000-34345400	Weak transcription	Fetal Stomach	stomach
10	chr6:34328000-34351200	Weak transcription	Gastric	stomach
11	chr6:34328400-34337800	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:34328600-34358000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:34328800-34337800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:34329000-34337800	Weak transcription	NHEK	skin
15	chr6:34329600-34345800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:34329800-34346400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:34329800-34351200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr6:34331000-34338000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:34331000-34358400	Weak transcription	Aorta	Aorta
20	chr6:34331200-34342200	Weak transcription	Brain Angular Gyrus	brain
21	chr6:34331200-34344400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr6:34331200-34346000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:34331200-34346200	Weak transcription	Brain Substantia Nigra	brain
24	chr6:34331200-34346200	Weak transcription	Stomach Mucosa	stomach
25	chr6:34331200-34351600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:34331400-34337800	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr6:34331400-34337800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:34331400-34338000	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:34331400-34338000	Weak transcription	Pancreas	Pancrea
30	chr6:34331400-34338000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr6:34331400-34338400	Weak transcription	Primary B cells from cord blood	blood
32	chr6:34331400-34340800	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr6:34331400-34341000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr6:34331400-34341000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:34331400-34341200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr6:34331400-34341200	Weak transcription	Brain Hippocampus Middle	brain
37	chr6:34331400-34342000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr6:34331400-34345800	Weak transcription	Fetal Intestine Small	intestine
39	chr6:34331400-34346000	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr6:34331400-34348600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:34331400-34351400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr6:34331400-34353400	Weak transcription	Small Intestine	intestine
43	chr6:34331400-34353600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr6:34331600-34341200	Weak transcription	Primary hematopoietic stem cells	blood
45	chr6:34331600-34342000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr6:34331600-34351400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr6:34331600-34353600	Weak transcription	Fetal Intestine Large	intestine
48	chr6:34331800-34337800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr6:34331800-34338000	Weak transcription	Adipose Nuclei	Adipose
50	chr6:34331800-34342400	Weak transcription	Liver	Liver

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