Variant report

Variant	rs2289813
Chromosome Location	chr13:96439532-96439533
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96437224..96440401-chr13:96442107..96444722,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12583253	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583374	0.81[ASN][1000 genomes]
rs12585001	0.81[ASN][1000 genomes]
rs12585954	0.83[ASN][1000 genomes]
rs17881101	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17882362	0.84[ASN][1000 genomes]
rs2289812	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][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];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3099358	1.00[YRI][hapmap]
rs3848075	1.00[CHB][hapmap];0.86[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs58498169	0.84[ASN][1000 genomes]
rs60253451	0.82[ASN][1000 genomes]
rs72632666	0.82[ASN][1000 genomes]
rs72632667	0.84[ASN][1000 genomes]
rs72632670	0.96[EUR][1000 genomes]
rs72632671	0.92[EUR][1000 genomes]
rs7335888	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7336750	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9556494	0.82[ASN][1000 genomes]
rs9556498	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][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];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561925	0.86[JPT][hapmap]
rs9561933	1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs9561938	1.00[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs9561944	0.88[ASN][1000 genomes]
rs9561950	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.96[GIH][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];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9561952	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561954	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561958	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561966	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9561970	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9561994	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes]
rs9561997	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.92[EUR][1000 genomes]
rs9669929	0.82[ASN][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	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96405400-96452600	Weak transcription	Psoas Muscle	Psoas
2	chr13:96405600-96455800	Weak transcription	Fetal Heart	heart
3	chr13:96408400-96443600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr13:96408600-96443200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr13:96408600-96445400	Weak transcription	K562	blood
6	chr13:96412000-96443400	Weak transcription	Colonic Mucosa	Colon
7	chr13:96413200-96439800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr13:96414000-96443400	Weak transcription	Brain Angular Gyrus	brain
9	chr13:96414400-96443400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr13:96416200-96443400	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr13:96416200-96445400	Weak transcription	Fetal Kidney	kidney
12	chr13:96416400-96440000	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr13:96416400-96440200	Weak transcription	HepG2	liver
14	chr13:96422200-96440600	Weak transcription	Fetal Lung	lung
15	chr13:96423800-96439600	Weak transcription	Esophagus	oesophagus
16	chr13:96429600-96444200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr13:96430000-96457400	Weak transcription	Brain Germinal Matrix	brain
18	chr13:96431600-96442400	Weak transcription	Fetal Brain Female	brain
19	chr13:96432400-96443000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr13:96433000-96453000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr13:96434200-96439600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr13:96434200-96441600	Weak transcription	Fetal Intestine Small	intestine
23	chr13:96434400-96443400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr13:96435000-96445800	Strong transcription	Primary B cells from cord blood	blood
25	chr13:96435000-96447800	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr13:96435600-96447200	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr13:96435800-96446800	Strong transcription	Primary T cells from cord blood	blood
28	chr13:96436000-96440800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr13:96436000-96449000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr13:96436200-96446600	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr13:96436200-96447000	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr13:96436200-96452200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr13:96436400-96443600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr13:96436400-96444600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr13:96436800-96440000	Weak transcription	Right Ventricle	heart
36	chr13:96437000-96442800	Weak transcription	Colon Smooth Muscle	Colon
37	chr13:96437000-96443200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr13:96437000-96443400	Weak transcription	Rectal Smooth Muscle	rectum
39	chr13:96437000-96451400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr13:96437200-96440800	Weak transcription	Stomach Smooth Muscle	stomach
41	chr13:96437200-96441600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr13:96437200-96442600	Weak transcription	Fetal Stomach	stomach
43	chr13:96437200-96443200	Weak transcription	Gastric	stomach
44	chr13:96437200-96443400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr13:96437200-96443400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr13:96437200-96444600	Weak transcription	A549	lung
47	chr13:96437200-96445000	Weak transcription	Aorta	Aorta
48	chr13:96437200-96445200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr13:96437400-96443200	Weak transcription	Hela-S3	cervix
50	chr13:96437400-96445800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links