Variant report

Variant	rs34422
Chromosome Location	chr5:107504127-107504128
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10051605	0.83[JPT][hapmap]
rs10477419	0.83[JPT][hapmap]
rs10477892	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs11742777	0.89[JPT][hapmap]
rs11747188	0.83[JPT][hapmap]
rs13153782	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13161833	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs13162374	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13162979	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13173916	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs13190222	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs15158	0.85[CEU][hapmap]
rs1544741	0.93[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs158170	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs158175	0.81[CEU][hapmap]
rs158283	0.81[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap]
rs158604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs158605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158607	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158608	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs158609	1.00[CEU][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1588496	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs17161232	0.83[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs17385448	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17452232	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs1828457	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs1849012	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs185361	0.83[ASN][1000 genomes]
rs1862196	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs286749	0.85[CEU][hapmap]
rs286764	0.82[CHB][hapmap]
rs286769	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs286771	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286809	0.83[CEU][hapmap]
rs286818	0.85[CEU][hapmap]
rs288131	0.83[CEU][hapmap]
rs288143	0.83[CEU][hapmap]
rs288144	0.83[CEU][hapmap]
rs288145	0.81[CEU][hapmap]
rs288154	0.85[CEU][hapmap]
rs288157	0.85[CEU][hapmap]
rs288161	0.85[CEU][hapmap]
rs288164	0.83[CEU][hapmap]
rs288171	0.85[CEU][hapmap]
rs288172	0.83[CEU][hapmap]
rs288173	0.83[CEU][hapmap]
rs288180	0.83[CEU][hapmap]
rs288230	0.85[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs288232	0.83[CEU][hapmap]
rs288237	0.81[CEU][hapmap]
rs289227	0.83[CEU][hapmap]
rs289228	0.85[CEU][hapmap]
rs289230	0.81[CEU][hapmap]
rs2900122	0.92[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs2941693	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs2941694	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs2941697	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2966824	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2966830	0.93[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs2966832	0.81[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs2966834	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs34261817	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34409	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34413	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34414	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34415	0.85[CEU][hapmap]
rs34420	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34423	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34527417	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34747859	0.85[EUR][1000 genomes]
rs34771507	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34854088	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35903369	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs41129	0.85[CEU][hapmap]
rs4957755	0.83[EUR][1000 genomes]
rs62359544	0.86[EUR][1000 genomes]
rs6594298	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6594299	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs6883082	0.82[CHB][hapmap]
rs6896653	0.83[EUR][1000 genomes]
rs71592749	0.86[EUR][1000 genomes]
rs7711964	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs7713705	0.82[CHB][hapmap]
rs7724056	0.92[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs988436	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs988437	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][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	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv830441	chr5:107450392-107614557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107474600-107511000	Weak transcription	Primary T cells from cord blood	blood
3	chr5:107475200-107527400	Weak transcription	Liver	Liver
4	chr5:107475800-107510400	Weak transcription	Fetal Intestine Small	intestine
5	chr5:107476000-107535600	Weak transcription	Left Ventricle	heart
6	chr5:107480800-107521000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr5:107481600-107504400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr5:107482000-107510800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr5:107492200-107519800	Weak transcription	Ovary	ovary
10	chr5:107494000-107504600	Weak transcription	Brain Hippocampus Middle	brain
11	chr5:107495400-107548800	Weak transcription	Pancreas	Pancrea
12	chr5:107496800-107528800	Weak transcription	Aorta	Aorta
13	chr5:107497800-107504600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr5:107502800-107505600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr5:107502800-107505600	Enhancers	Fetal Heart	heart
16	chr5:107503000-107504600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr5:107503400-107504400	Weak transcription	HMEC	breast
18	chr5:107503400-107504600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr5:107503400-107505600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr5:107504000-107505400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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