Variant report

Variant	rs4713773
Chromosome Location	chr6:34319392-34319393
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34318109..34321086-chr6:34360029..34361626,2	MCF-7	breast:
2	chr6:34311894..34313491-chr6:34319028..34320786,2	K562	blood:
3	chr6:34314465..34317126-chr6:34317621..34320996,4	K562	blood:

Variant related genes	Relation type
ENSG00000272325	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12662460	0.86[ASN][1000 genomes]
rs12664001	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12665397	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16885998	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16889706	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16889714	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2071928	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34384951	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3778077	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3798562	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3798564	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3800476	0.80[AMR][1000 genomes]
rs3800477	0.80[AMR][1000 genomes]
rs4711390	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4713770	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713772	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4713774	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713775	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713776	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713777	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4713780	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4713781	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4713783	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4713787	0.83[AMR][1000 genomes]
rs58648597	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59310759	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60100381	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62399909	0.86[ASN][1000 genomes]
rs6924682	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6935129	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7752035	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7767431	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9766229	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3526078	chr6:34315303-34320020	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3509192	chr6:34315574-34320922	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv3509193	chr6:34315574-34320922	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3526073	chr6:34315874-34320672	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv3472472	chr6:34316747-34319852	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3472471	chr6:34316938-34319708	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3526077	chr6:34316958-34319683	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv3472470	chr6:34316986-34319672	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	esv3526076	chr6:34316989-34319645	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	esv3472468	chr6:34316990-34319681	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv14327	chr6:34317011-34319617	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv3472467	chr6:34317018-34319628	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv3504938	chr6:34317020-34319653	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv3504936	chr6:34317049-34319651	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3472469	chr6:34317094-34319606	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv3526075	chr6:34317104-34319607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3472473	chr6:34317108-34319605	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv3504939	chr6:34317108-34319605	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	esv3526079	chr6:34317108-34319605	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	nsv602886	chr6:34317120-34319871	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	esv1799298	chr6:34317120-34322841	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
22	esv3504937	chr6:34317148-34319714	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
23	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
24	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

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34261800-34330800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:34285200-34330600	Weak transcription	Thymus	Thymus
3	chr6:34285800-34326600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr6:34289000-34325200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:34298600-34326400	Weak transcription	A549	lung
6	chr6:34306000-34327800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:34306000-34328800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:34307000-34320000	Weak transcription	Ovary	ovary
9	chr6:34308800-34330800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:34309600-34319800	Weak transcription	Small Intestine	intestine
11	chr6:34309600-34329200	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr6:34309800-34320000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr6:34309800-34320000	Weak transcription	Pancreas	Pancrea
14	chr6:34309800-34320200	Weak transcription	HepG2	liver
15	chr6:34309800-34321400	Weak transcription	Lung	lung
16	chr6:34309800-34327000	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:34309800-34329800	Weak transcription	Fetal Thymus	thymus
18	chr6:34309800-34330800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr6:34309800-34337600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:34309800-34347200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr6:34310000-34320200	Weak transcription	Fetal Stomach	stomach
22	chr6:34310000-34330600	Weak transcription	Dnd41	blood
23	chr6:34310400-34320000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:34310400-34321600	Weak transcription	Right Ventricle	heart
25	chr6:34310400-34329200	Weak transcription	Brain Angular Gyrus	brain
26	chr6:34310600-34320000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr6:34310600-34326400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr6:34310800-34320000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:34310800-34330800	Weak transcription	Primary T cells from cord blood	blood
30	chr6:34311200-34321800	Weak transcription	Psoas Muscle	Psoas
31	chr6:34314800-34320200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr6:34315400-34351200	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr6:34316200-34333400	Weak transcription	Placenta	Placenta
34	chr6:34317000-34320400	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr6:34317200-34319400	Enhancers	Primary neutrophils fromperipheralblood	blood
36	chr6:34317200-34319400	Enhancers	HSMM	muscle
37	chr6:34317400-34330800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:34317600-34320000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:34317800-34319400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:34318000-34319400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:34318000-34319400	Enhancers	NHDF-Ad	bronchial
42	chr6:34318000-34320000	Enhancers	Monocytes-CD14+_RO01746	blood
43	chr6:34318000-34320200	Enhancers	Primary B cells from cord blood	blood
44	chr6:34318000-34320400	Enhancers	K562	blood
45	chr6:34318200-34319800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:34318200-34320000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:34318200-34326400	Weak transcription	Fetal Muscle Leg	muscle
48	chr6:34318200-34330600	Weak transcription	Brain Hippocampus Middle	brain
49	chr6:34318200-34355800	Weak transcription	Brain Germinal Matrix	brain
50	chr6:34318400-34320000	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links