Variant report

Variant	rs4640696
Chromosome Location	chr4:62606930-62606931
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1497918	1.00[GIH][hapmap]
rs4642280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56727277	0.91[AMR][1000 genomes]
rs56737906	1.00[AMR][1000 genomes]
rs57192573	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57313433	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57393120	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57495327	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57754511	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs58123642	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58204387	0.91[AMR][1000 genomes]
rs58413598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58608230	1.00[AMR][1000 genomes]
rs58621029	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58665063	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59325906	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59347828	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59372045	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59409296	0.86[EUR][1000 genomes]
rs59505260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59595217	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59946847	1.00[AMR][1000 genomes]
rs60025474	0.91[AMR][1000 genomes]
rs60324820	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60655770	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60822706	0.91[AMR][1000 genomes]
rs61109141	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6811641	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6812376	0.81[AMR][1000 genomes]
rs6816114	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6817207	0.93[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][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];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6817781	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6834816	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6834831	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6835449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6839693	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6850929	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6856043	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6857146	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6857338	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7658040	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7666147	1.00[GIH][hapmap]
rs7686832	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7687644	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9759648	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9759655	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9762431	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9762466	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9998456	1.00[GIH][hapmap]

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	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62594600-62609400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:62597200-62609400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:62599800-62608800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:62600400-62607000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:62603800-62607800	Strong transcription	H9 Cell Line	embryonic stem cell
6	chr4:62605000-62607400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
7	chr4:62606000-62607400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr4:62606000-62607800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr4:62606200-62607000	Enhancers	Brain Hippocampus Middle	brain
10	chr4:62606200-62607400	Enhancers	Brain Angular Gyrus	brain
11	chr4:62606200-62607600	Genic enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:62606200-62607800	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr4:62606200-62607800	Enhancers	Liver	Liver
14	chr4:62606200-62608000	Enhancers	Fetal Stomach	stomach
15	chr4:62606400-62607200	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr4:62606400-62607200	Flanking Active TSS	Fetal Brain Male	brain
17	chr4:62606400-62607400	Enhancers	Brain Germinal Matrix	brain
18	chr4:62606400-62607400	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr4:62606400-62607400	Enhancers	Fetal Heart	heart
20	chr4:62606400-62607400	Enhancers	Fetal Kidney	kidney
21	chr4:62606400-62607600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr4:62606600-62607000	Flanking Active TSS	Brain Anterior Caudate	brain
23	chr4:62606600-62607200	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr4:62606600-62607200	Flanking Active TSS	Fetal Lung	lung
25	chr4:62606600-62607800	Genic enhancers	HUES48 Cell Line	embryonic stem cell
26	chr4:62606600-62607800	Genic enhancers	HUES6 Cell Line	embryonic stem cell
27	chr4:62606600-62607800	Enhancers	Fetal Brain Female	brain
28	chr4:62606600-62607800	Enhancers	Fetal Muscle Leg	muscle
29	chr4:62606800-62607000	Genic enhancers	H1 Cell Line	embryonic stem cell
30	chr4:62606800-62607000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr4:62606800-62607000	Active TSS	Brain Cingulate Gyrus	brain
32	chr4:62606800-62607200	Flanking Active TSS	Brain Substantia Nigra	brain
33	chr4:62606800-62607600	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr4:62606800-62607600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr4:62606800-62608000	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links