Variant report

Variant	rs9386076
Chromosome Location	chr6:144998088-144998089
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11155364	0.87[GIH][hapmap];0.82[MEX][hapmap]
rs11155365	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11155370	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]
rs12209027	0.91[CEU][hapmap];0.93[GIH][hapmap]
rs17073995	0.80[GIH][hapmap]
rs17074004	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1980379	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2056744	0.80[GIH][hapmap]
rs2056745	0.91[CEU][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3950347	0.81[AMR][1000 genomes]
rs4895646	0.91[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.81[AMR][1000 genomes]
rs6907773	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9373420	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9376835	0.85[CHD][hapmap];0.83[GIH][hapmap]
rs9376837	1.00[CEU][hapmap];0.85[CHD][hapmap];0.94[GIH][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9376838	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9390184	0.91[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.82[EUR][1000 genomes]
rs9390187	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9390188	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9399483	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs9399486	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];1.00[EUR][1000 genomes]
rs9399488	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403578	0.94[AMR][1000 genomes];0.98[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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9386076	STX11	cis	cerebellum	SCAN

Chromatin state (count:78 , 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	chr6:144993000-145000800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr6:144995000-144999600	Weak transcription	HepG2	liver
8	chr6:144995400-145002000	Weak transcription	Primary T cells from cord blood	blood
9	chr6:144995600-144998400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:144995800-145001800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr6:144996000-145000000	Weak transcription	Primary B cells from peripheral blood	blood
12	chr6:144996000-145010000	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr6:144996400-144998200	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr6:144996600-145001600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:144996600-145001800	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:144996600-145002000	Weak transcription	Lung	lung
17	chr6:144996600-145004000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr6:144996600-145004000	Weak transcription	Thymus	Thymus
19	chr6:144996600-145004200	Weak transcription	HSMMtube	muscle
20	chr6:144996600-145007400	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr6:144996600-145018400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr6:144996600-145052400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr6:144996800-145000800	Weak transcription	Ovary	ovary
24	chr6:144996800-145001000	Weak transcription	Fetal Thymus	thymus
25	chr6:144996800-145001600	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr6:144996800-145002000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr6:144996800-145002000	Weak transcription	Right Atrium	heart
28	chr6:144996800-145002200	Weak transcription	Fetal Heart	heart
29	chr6:144996800-145007400	Weak transcription	Duodenum Mucosa	Duodenum
30	chr6:144996800-145009800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr6:144997000-144998200	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr6:144997000-144999000	Enhancers	Dnd41	blood
33	chr6:144997000-144999400	Weak transcription	Primary B cells from cord blood	blood
34	chr6:144997000-144999400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr6:144997000-144999600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr6:144997000-144999600	Weak transcription	NHDF-Ad	bronchial
37	chr6:144997000-144999800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr6:144997000-145000000	Weak transcription	Adipose Nuclei	Adipose
39	chr6:144997000-145000200	Weak transcription	Colon Smooth Muscle	Colon
40	chr6:144997000-145000200	Weak transcription	HSMM	muscle
41	chr6:144997000-145000400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr6:144997000-145000800	Weak transcription	Primary hematopoietic stem cells	blood
43	chr6:144997000-145002000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr6:144997000-145002000	Weak transcription	Left Ventricle	heart
45	chr6:144997000-145002200	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr6:144997000-145004000	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:144997000-145004200	Weak transcription	Fetal Muscle Leg	muscle
48	chr6:144997000-145004200	Weak transcription	Gastric	stomach
49	chr6:144997000-145004200	Weak transcription	Pancreas	Pancrea
50	chr6:144997000-145004200	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links