Variant report

Variant	rs6895423
Chromosome Location	chr5:36214134-36214135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10051604	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10079844	1.00[GIH][hapmap];0.95[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10079850	1.00[GIH][hapmap];0.90[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10080095	0.91[ASN][1000 genomes]
rs10214173	0.91[ASN][1000 genomes]
rs10223062	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1035480	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs10473001	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10473002	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10512643	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10737962	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10805609	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10805610	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10805611	0.91[ASN][1000 genomes]
rs10805612	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs11747169	0.91[ASN][1000 genomes]
rs12697356	0.85[GIH][hapmap]
rs13360059	0.91[ASN][1000 genomes]
rs1345776	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1363843	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1363844	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1364017	1.00[ASW][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1423223	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1423224	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs1423226	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1500224	0.85[GIH][hapmap]
rs152365	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs152366	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1816101	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1862543	0.91[ASN][1000 genomes]
rs1862544	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs2303163	1.00[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2362978	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2362980	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs27733	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs33663	0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34888491	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3761974	0.84[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3849786	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3860801	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3906394	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41445147	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs430421	0.88[ASN][1000 genomes]
rs4869473	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4869474	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4869626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4869634	0.91[ASN][1000 genomes]
rs4869635	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs4869636	0.91[ASN][1000 genomes]
rs6451262	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6451263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6451265	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6451269	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6451270	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6863707	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6866745	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6869599	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6870255	0.93[ASN][1000 genomes]
rs6873176	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874389	0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs6881086	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6886098	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6891120	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6892199	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6893107	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6898215	0.90[ASN][1000 genomes]
rs7705209	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7705396	1.00[GIH][hapmap];0.95[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7705858	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7705985	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7715317	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7720779	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7722251	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7724057	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7729152	0.83[ASN][1000 genomes]
rs878607	0.91[ASN][1000 genomes]
rs991032	0.90[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases
2	nsv1015638	chr5:36203646-36312576	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36164800-36220800	Weak transcription	Gastric	stomach
2	chr5:36171800-36220600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr5:36172000-36229200	Weak transcription	Colonic Mucosa	Colon
4	chr5:36175200-36220800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr5:36175600-36222400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr5:36179000-36222800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:36179000-36230000	Weak transcription	Psoas Muscle	Psoas
8	chr5:36182200-36214800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr5:36182800-36220400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr5:36182800-36220600	Weak transcription	Brain Angular Gyrus	brain
11	chr5:36190000-36220800	Weak transcription	Spleen	Spleen
12	chr5:36190200-36220800	Weak transcription	Esophagus	oesophagus
13	chr5:36190400-36220800	Weak transcription	Lung	lung
14	chr5:36190600-36227400	Weak transcription	Thymus	Thymus
15	chr5:36191800-36220600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr5:36191800-36230000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:36192000-36224200	Weak transcription	Aorta	Aorta
18	chr5:36192600-36227800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr5:36193600-36220800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr5:36193600-36220800	Weak transcription	Pancreas	Pancrea
21	chr5:36196600-36236600	Weak transcription	GM12878-XiMat	blood
22	chr5:36197800-36220800	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr5:36197800-36224800	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr5:36198000-36238400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr5:36198200-36214800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr5:36200000-36229600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr5:36200200-36220800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr5:36200200-36239400	Weak transcription	Fetal Brain Male	brain
29	chr5:36200400-36214800	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr5:36201000-36214600	Weak transcription	HMEC	breast
31	chr5:36201200-36214800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr5:36201200-36214800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr5:36201200-36222000	Weak transcription	A549	lung
34	chr5:36201200-36230200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr5:36201400-36240000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr5:36202800-36220800	Weak transcription	Right Ventricle	heart
37	chr5:36203000-36219400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr5:36203000-36220600	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr5:36203600-36219200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr5:36203600-36220200	Strong transcription	Placenta	Placenta
41	chr5:36203800-36220800	Weak transcription	Brain Substantia Nigra	brain
42	chr5:36203800-36227000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr5:36204000-36222600	Weak transcription	Fetal Heart	heart
44	chr5:36204000-36227000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr5:36205200-36226800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr5:36205800-36215400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr5:36205800-36215600	Weak transcription	HepG2	liver
48	chr5:36205800-36221800	Weak transcription	Colon Smooth Muscle	Colon
49	chr5:36206600-36216600	Weak transcription	Primary B cells from peripheral blood	blood
50	chr5:36206600-36219400	Weak transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links