Variant report

Variant	rs28458475
Chromosome Location	chr4:101964749-101964750
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10003855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10008256	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10018451	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10019194	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10020845	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10022217	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10023000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10025768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10026319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10026659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10027131	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10034707	0.83[EUR][1000 genomes]
rs13328021	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17030727	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28360801	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28376904	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28396919	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28449812	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28470872	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28473322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28535640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28553415	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28564838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28590461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28633419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28648715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28654209	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28668844	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28704078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28879734	1.00[ASN][1000 genomes]
rs6824097	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6826912	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72681014	1.00[ASN][1000 genomes]
rs7356517	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9993215	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv511238	chr4:101960095-101965295	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
3	esv1837646	chr4:101960259-101965295	Weak transcription Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:101936200-101967800	Weak transcription	Fetal Kidney	kidney
2	chr4:101941200-101971000	Weak transcription	Psoas Muscle	Psoas
3	chr4:101941200-102000200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr4:101941200-102035600	Weak transcription	Fetal Intestine Small	intestine
5	chr4:101942000-101970200	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:101942400-101971400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:101942600-101966800	Weak transcription	Gastric	stomach
8	chr4:101942600-102003200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr4:101942600-102024400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:101943200-101967400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr4:101943200-101967400	Weak transcription	Spleen	Spleen
12	chr4:101943400-101967200	Weak transcription	Fetal Brain Male	brain
13	chr4:101943800-102023400	Weak transcription	Fetal Lung	lung
14	chr4:101944400-101968400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr4:101944400-101981200	Weak transcription	Pancreas	Pancrea
16	chr4:101944400-102000200	Weak transcription	Fetal Stomach	stomach
17	chr4:101945600-101970800	Weak transcription	Brain Cingulate Gyrus	brain
18	chr4:101945800-101970800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr4:101947800-102012600	Weak transcription	Fetal Muscle Leg	muscle
20	chr4:101950200-101967000	Weak transcription	Stomach Mucosa	stomach
21	chr4:101950200-101971400	Weak transcription	Brain Angular Gyrus	brain
22	chr4:101950400-101965800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr4:101950400-101971400	Weak transcription	Brain Anterior Caudate	brain
24	chr4:101951800-101967200	Weak transcription	Right Ventricle	heart
25	chr4:101953600-101966000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr4:101953600-101970200	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr4:101953600-101972000	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr4:101953600-101983800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr4:101953600-101992200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr4:101953600-102015200	Weak transcription	Fetal Intestine Large	intestine
31	chr4:101954000-101965800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:101954200-101972000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr4:101955400-101966000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr4:101955400-101966000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr4:101957200-101966400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr4:101958400-101981200	Weak transcription	Aorta	Aorta
37	chr4:101958800-101966000	Weak transcription	Ovary	ovary
38	chr4:101959000-102023000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr4:101959400-101965800	Weak transcription	Primary T cells from cord blood	blood
40	chr4:101959400-101966000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr4:101959400-101967400	Weak transcription	Hela-S3	cervix
42	chr4:101959400-101981400	Weak transcription	HMEC	breast
43	chr4:101959600-101971400	Weak transcription	Left Ventricle	heart
44	chr4:101959600-101984400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr4:101959600-101986800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr4:101959600-101990600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr4:101959600-102003000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr4:101959800-101969200	Weak transcription	Lung	lung
49	chr4:101960800-101965400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr4:101960800-101965800	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links