Variant report

Variant	rs11155370
Chromosome Location	chr6:145001887-145001888
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10499232	0.85[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs11155364	0.86[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap];0.81[LWK][hapmap];0.82[MEX][hapmap];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11155365	0.91[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12209027	0.91[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];0.80[AMR][1000 genomes]
rs12662483	0.81[CHB][hapmap];0.82[ASN][1000 genomes]
rs12662875	0.82[ASN][1000 genomes]
rs17073972	0.82[JPT][hapmap]
rs17073995	0.86[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs17074004	0.91[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1980379	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2056744	0.86[CHB][hapmap];0.83[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs2056745	0.91[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.85[AMR][1000 genomes]
rs3950347	0.81[ASN][1000 genomes]
rs4895646	0.91[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.82[MEX][hapmap];0.81[ASN][1000 genomes]
rs6907773	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9373419	0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs9373420	0.90[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376835	0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9376837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376841	0.81[CHB][hapmap]
rs9386075	0.98[ASN][1000 genomes]
rs9386076	1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9390184	0.91[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9390187	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390188	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390194	0.85[CHB][hapmap]
rs9399483	0.91[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs9399485	0.98[ASN][1000 genomes]
rs9399486	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399488	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9399489	1.00[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9403572	0.86[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs9403578	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403580	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv604822	chr6:144968195-145001887	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144981200-145031000	Weak transcription	Placenta	Placenta
2	chr6:144982800-145010000	Weak transcription	Fetal Stomach	stomach
3	chr6:144983000-145024600	Weak transcription	Fetal Kidney	kidney
4	chr6:144985000-145004200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:144986200-145002000	Weak transcription	Small Intestine	intestine
6	chr6:144995400-145002000	Weak transcription	Primary T cells from cord blood	blood
7	chr6:144996000-145010000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:144996600-145002000	Weak transcription	Lung	lung
9	chr6:144996600-145004000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr6:144996600-145004000	Weak transcription	Thymus	Thymus
11	chr6:144996600-145004200	Weak transcription	HSMMtube	muscle
12	chr6:144996600-145007400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr6:144996600-145018400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:144996600-145052400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr6:144996800-145002000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr6:144996800-145002000	Weak transcription	Right Atrium	heart
17	chr6:144996800-145002200	Weak transcription	Fetal Heart	heart
18	chr6:144996800-145007400	Weak transcription	Duodenum Mucosa	Duodenum
19	chr6:144996800-145009800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr6:144997000-145002000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr6:144997000-145002000	Weak transcription	Left Ventricle	heart
22	chr6:144997000-145002200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:144997000-145004000	Weak transcription	Stomach Smooth Muscle	stomach
24	chr6:144997000-145004200	Weak transcription	Fetal Muscle Leg	muscle
25	chr6:144997000-145004200	Weak transcription	Gastric	stomach
26	chr6:144997000-145004200	Weak transcription	Pancreas	Pancrea
27	chr6:144997000-145004200	Weak transcription	Psoas Muscle	Psoas
28	chr6:144997000-145004200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:144997000-145004200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr6:144997000-145006200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr6:144997000-145006400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr6:144997000-145006600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:144997000-145008000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr6:144997000-145008000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:144997000-145008600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:144997000-145009400	Weak transcription	HMEC	breast
37	chr6:144997000-145010000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr6:144997000-145010000	Weak transcription	Fetal Intestine Small	intestine
39	chr6:144997000-145010000	Weak transcription	Spleen	Spleen
40	chr6:144997000-145010200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:144997000-145010200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:144997000-145010600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:144997000-145010600	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr6:144997000-145011000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:144997000-145011400	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr6:144997000-145011800	Weak transcription	Colonic Mucosa	Colon
47	chr6:144997000-145017600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr6:144997200-145018000	Weak transcription	NHLF	lung
49	chr6:144997800-145007400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:144998400-145002200	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links