Variant report

Variant	rs28600674
Chromosome Location	chr4:107207836-107207837
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10009873	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10010622	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10010712	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10023586	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10026011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10033060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11544776	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11729801	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11736679	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28408532	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28432701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28597815	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28615207	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28648796	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28668834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28722963	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28783132	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28786397	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28786712	0.90[AMR][1000 genomes]
rs28823294	0.90[AMR][1000 genomes]
rs28843476	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28848568	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28852980	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28857517	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28890246	0.90[AMR][1000 genomes]
rs6820647	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7356173	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7679603	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7682001	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9996386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv879704	chr4:107095901-107212966	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv879705	chr4:107179126-107212966	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv830029	chr4:107203096-107353483	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:107114600-107236000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr4:107141600-107214800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr4:107155600-107236000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:107170800-107208200	Weak transcription	Fetal Kidney	kidney
5	chr4:107177800-107211600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:107177800-107215200	Weak transcription	Brain Hippocampus Middle	brain
7	chr4:107178000-107208200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr4:107178000-107208400	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr4:107178000-107211800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr4:107178000-107211800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr4:107178000-107211800	Weak transcription	Fetal Muscle Leg	muscle
12	chr4:107178000-107211800	Weak transcription	Fetal Stomach	stomach
13	chr4:107178000-107211800	Weak transcription	Left Ventricle	heart
14	chr4:107178000-107211800	Weak transcription	Ovary	ovary
15	chr4:107178000-107236200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr4:107178000-107236200	Weak transcription	Right Ventricle	heart
17	chr4:107178000-107236600	Weak transcription	Esophagus	oesophagus
18	chr4:107178000-107236600	Weak transcription	Pancreas	Pancrea
19	chr4:107178200-107211600	Weak transcription	Placenta	Placenta
20	chr4:107178200-107236000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr4:107179000-107211400	Weak transcription	Primary B cells from peripheral blood	blood
22	chr4:107179800-107208600	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr4:107186000-107211800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr4:107186200-107212800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:107187000-107208200	Weak transcription	Fetal Intestine Large	intestine
26	chr4:107187600-107215200	Weak transcription	Fetal Intestine Small	intestine
27	chr4:107190800-107208600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:107192000-107208600	Weak transcription	HSMMtube	muscle
29	chr4:107192400-107215200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr4:107192600-107208000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr4:107194200-107211800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:107194400-107221200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr4:107194800-107227600	Weak transcription	Brain Angular Gyrus	brain
34	chr4:107195000-107208600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr4:107195400-107213000	Weak transcription	Stomach Smooth Muscle	stomach
36	chr4:107195600-107214400	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr4:107196000-107211800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr4:107196200-107208600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr4:107196200-107208600	Weak transcription	HMEC	breast
40	chr4:107198800-107235600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr4:107199000-107208000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr4:107199200-107208200	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr4:107199200-107208600	Weak transcription	Osteobl	bone
44	chr4:107199200-107211800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr4:107199600-107208200	Weak transcription	HUVEC	blood vessel
46	chr4:107201400-107227800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr4:107202200-107219400	Weak transcription	Fetal Brain Male	brain
48	chr4:107202800-107236000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr4:107203200-107212200	Weak transcription	Fetal Lung	lung
50	chr4:107204000-107235800	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links