Variant report

Variant	rs6739506
Chromosome Location	chr2:33506363-33506364
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:33505710..33509161-chr2:33514931..33517884,3	K562	blood:

Variant related genes	Relation type
ENSG00000049323	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10169788	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10175557	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10175619	0.92[CEU][hapmap];0.83[CHB][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11124313	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11673950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11684829	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13391131	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13392154	0.92[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13394170	0.83[ASN][1000 genomes]
rs13394195	0.96[CEU][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13403065	0.84[CEU][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs13414720	0.87[ASN][1000 genomes]
rs17582516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2603361	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3769540	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3769542	0.89[YRI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3769544	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3769545	0.83[CHB][hapmap];0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs41464348	0.84[MEX][hapmap]
rs4233909	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670387	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670408	0.80[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62148881	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62148882	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62148927	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62148931	0.84[ASN][1000 genomes]
rs6543704	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6543705	0.96[CEU][hapmap];0.91[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6711027	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6739030	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6739725	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6751758	0.86[JPT][hapmap]
rs711234	1.00[CHB][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs711235	1.00[CHB][hapmap];0.88[JPT][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs723043	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs749454	0.91[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs7565095	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7575377	0.84[MEX][hapmap]
rs7581438	0.86[ASN][1000 genomes]
rs7586227	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7590205	1.00[ASW][hapmap];0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.83[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];0.88[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7605474	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs817529	1.00[ASW][hapmap];0.89[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs817532	0.80[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.88[MEX][hapmap];0.91[MKK][hapmap];0.93[TSI][hapmap];0.94[YRI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs817534	0.93[ASW][hapmap];0.92[CEU][hapmap];0.91[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs817535	0.91[MEX][hapmap]
rs817536	1.00[ASW][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes]
rs817537	0.86[ASW][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes]
rs817539	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs877672	0.80[MEX][hapmap]
rs9308934	0.84[CEU][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs971793	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998167	chr2:33074313-33541100	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv535623	chr2:33074313-33541100	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1005435	chr2:33136117-33747159	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
4	nsv535624	chr2:33136117-33747159	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
5	nsv873791	chr2:33489975-33586776	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv518285	chr2:33502505-33509219	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33472000-33516600	Weak transcription	Psoas Muscle	Psoas
2	chr2:33487000-33509800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr2:33490600-33515600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr2:33492000-33515800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr2:33492200-33516600	Weak transcription	Brain Hippocampus Middle	brain
6	chr2:33492200-33516600	Weak transcription	Brain Substantia Nigra	brain
7	chr2:33492400-33547400	Weak transcription	Fetal Intestine Small	intestine
8	chr2:33492600-33508400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr2:33493600-33515200	Weak transcription	Fetal Lung	lung
10	chr2:33493800-33515400	Weak transcription	Colon Smooth Muscle	Colon
11	chr2:33494200-33516000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr2:33494200-33516200	Weak transcription	Fetal Kidney	kidney
13	chr2:33494600-33515200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr2:33499200-33508000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr2:33501200-33511000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:33501200-33516400	Weak transcription	Stomach Mucosa	stomach
17	chr2:33501200-33528800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr2:33501400-33516600	Weak transcription	K562	blood
19	chr2:33501600-33509000	Weak transcription	HUVEC	blood vessel
20	chr2:33501800-33517800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr2:33502400-33512400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr2:33502400-33512600	Weak transcription	Lung	lung
23	chr2:33502400-33514000	Strong transcription	Osteobl	bone
24	chr2:33502400-33516000	Weak transcription	Brain Angular Gyrus	brain
25	chr2:33502400-33516600	Weak transcription	Pancreas	Pancrea
26	chr2:33502400-33516600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr2:33502400-33516800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:33502400-33516800	Weak transcription	Esophagus	oesophagus
29	chr2:33502600-33515200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr2:33502600-33515400	Weak transcription	NHDF-Ad	bronchial
31	chr2:33502600-33515800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr2:33502600-33537000	Weak transcription	Fetal Intestine Large	intestine
33	chr2:33503200-33515000	Weak transcription	Ovary	ovary
34	chr2:33503400-33515600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr2:33503600-33515400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr2:33503600-33518200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr2:33504000-33506800	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr2:33504000-33515800	Weak transcription	Fetal Brain Female	brain
39	chr2:33504200-33516000	Weak transcription	Fetal Brain Male	brain
40	chr2:33504400-33508000	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr2:33504400-33511800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr2:33504800-33506400	Strong transcription	Liver	Liver
43	chr2:33504800-33506600	Strong transcription	Left Ventricle	heart
44	chr2:33504800-33506800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr2:33504800-33507400	Strong transcription	Stomach Smooth Muscle	stomach
46	chr2:33505000-33526200	Weak transcription	Placenta	Placenta
47	chr2:33505200-33506800	Strong transcription	Fetal Muscle Leg	muscle
48	chr2:33505400-33506400	Weak transcription	Right Ventricle	heart
49	chr2:33505400-33506400	Weak transcription	NH-A	brain
50	chr2:33505400-33506800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links