Variant report

Variant	rs7671702
Chromosome Location	chr4:99561695-99561696
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10034419	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12505801	0.96[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12507328	0.82[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.86[ASN][1000 genomes]
rs1528545	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2866014	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs28713515	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6532755	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6837798	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6837860	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6837959	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7661136	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7686325	0.97[ASN][1000 genomes]
rs871473	0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs871474	0.86[CHB][hapmap];0.89[CHD][hapmap];0.80[ASN][1000 genomes]
rs9307228	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9991053	0.88[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594940	chr4:99542475-99573350	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7671702	EIF4E	cis	cerebellum	SCAN

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99548000-99569200	Weak transcription	Gastric	stomach
2	chr4:99548000-99577000	Weak transcription	Esophagus	oesophagus
3	chr4:99548400-99563600	Weak transcription	HSMM	muscle
4	chr4:99549600-99563200	Weak transcription	HMEC	breast
5	chr4:99549800-99563600	Weak transcription	NHEK	skin
6	chr4:99550000-99563600	Weak transcription	HUVEC	blood vessel
7	chr4:99551800-99563200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:99552600-99569600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:99552800-99569200	Weak transcription	Fetal Stomach	stomach
10	chr4:99553200-99564200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:99554000-99564000	Weak transcription	Osteobl	bone
12	chr4:99554200-99562600	Weak transcription	NH-A	brain
13	chr4:99554200-99564200	Weak transcription	Pancreas	Pancrea
14	chr4:99554200-99569200	Weak transcription	Spleen	Spleen
15	chr4:99554400-99564200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:99555800-99563200	Enhancers	Brain Cingulate Gyrus	brain
17	chr4:99558000-99561800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr4:99558000-99562000	Enhancers	Brain Substantia Nigra	brain
19	chr4:99558000-99563600	Enhancers	Brain Angular Gyrus	brain
20	chr4:99558200-99563000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr4:99558200-99564200	Weak transcription	Fetal Heart	heart
22	chr4:99558400-99563200	Weak transcription	Right Ventricle	heart
23	chr4:99559400-99564400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr4:99559600-99563600	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr4:99560200-99562000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr4:99560200-99565600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr4:99560200-99569200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr4:99560600-99562600	Weak transcription	Brain Anterior Caudate	brain
29	chr4:99560600-99564200	Weak transcription	Thymus	Thymus
30	chr4:99560600-99568000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr4:99560800-99562200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:99560800-99562600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr4:99560800-99562800	Weak transcription	Stomach Mucosa	stomach
34	chr4:99560800-99564200	Weak transcription	Fetal Thymus	thymus
35	chr4:99560800-99566400	Weak transcription	Brain Germinal Matrix	brain
36	chr4:99560800-99568200	Weak transcription	Fetal Lung	lung
37	chr4:99561000-99562000	Enhancers	Ovary	ovary
38	chr4:99561000-99562000	Weak transcription	NHLF	lung
39	chr4:99561000-99562200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr4:99561000-99562400	Enhancers	Primary T helper naive cells from peripheral blood	blood
41	chr4:99561000-99562800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr4:99561000-99563000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr4:99561000-99564800	Weak transcription	Primary T cells from cord blood	blood
44	chr4:99561000-99566000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr4:99561200-99562000	Enhancers	Primary T cells fromperipheralblood	blood
46	chr4:99561200-99562000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr4:99561200-99562200	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr4:99561200-99564800	Enhancers	Primary T helper cells PMA-I stimulated	--
49	chr4:99561200-99565200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr4:99561200-99565400	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links