Variant report

Variant	rs9373420
Chromosome Location	chr6:144996792-144996793
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10499232	0.83[ASN][1000 genomes]
rs11155364	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11155365	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11155370	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]
rs12209027	0.80[AMR][1000 genomes]
rs12662483	0.83[ASN][1000 genomes]
rs12662875	0.83[ASN][1000 genomes]
rs17073995	0.82[ASN][1000 genomes]
rs17074004	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1980379	0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2056744	0.82[ASN][1000 genomes]
rs2056745	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3950347	0.83[ASN][1000 genomes]
rs4895646	0.82[ASN][1000 genomes]
rs6570639	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs6907773	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9373419	0.81[ASN][1000 genomes]
rs9376835	0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs9376837	0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376838	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386075	0.99[ASN][1000 genomes]
rs9386076	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9390184	0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9390187	0.91[JPT][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]
rs9390188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9399483	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9399485	0.99[ASN][1000 genomes]
rs9399486	0.91[JPT][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]
rs9399488	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9399489	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9403572	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9403578	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[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	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

No data

Chromatin state (count:84 , 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	chr6:144995600-144997000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr6:144995600-144997000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:144995600-144997000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
12	chr6:144995600-144998400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:144995800-144997000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:144995800-145001800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr6:144996000-144996800	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr6:144996000-144997000	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr6:144996000-144997000	Flanking Active TSS	Dnd41	blood
18	chr6:144996000-145000000	Weak transcription	Primary B cells from peripheral blood	blood
19	chr6:144996000-145010000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr6:144996200-144996800	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr6:144996200-144996800	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr6:144996200-144996800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:144996200-144996800	Enhancers	Duodenum Mucosa	Duodenum
24	chr6:144996200-144996800	Enhancers	Fetal Thymus	thymus
25	chr6:144996200-144997000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:144996200-144997000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:144996200-144997000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:144996200-144997000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
29	chr6:144996200-144997000	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr6:144996200-144997000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr6:144996200-144997000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr6:144996200-144997000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr6:144996200-144997000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:144996200-144997000	Enhancers	Muscle Satellite Cultured Cells	--
35	chr6:144996200-144997000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr6:144996200-144997000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:144996200-144997000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:144996200-144997000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:144996200-144997000	Enhancers	Esophagus	oesophagus
40	chr6:144996200-144997000	ZNF genes & repeats	Fetal Intestine Small	intestine
41	chr6:144996200-144997000	Enhancers	Fetal Muscle Leg	muscle
42	chr6:144996200-144997000	Enhancers	Gastric	stomach
43	chr6:144996200-144997000	Enhancers	Psoas Muscle	Psoas
44	chr6:144996200-144997000	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr6:144996200-144997000	Enhancers	Sigmoid Colon	Sigmoid Colon
46	chr6:144996200-144997000	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr6:144996200-144997000	Enhancers	Spleen	Spleen
48	chr6:144996200-144997000	Enhancers	HMEC	breast
49	chr6:144996200-144997000	Enhancers	HSMM	muscle
50	chr6:144996200-144997000	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links