Variant report

Variant	rs17080323
Chromosome Location	chr6:149265149-149265150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1038348	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10499256	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs12175861	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080004	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080152	1.00[CEU][hapmap]
rs17080185	0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17728703	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs1964571	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3734374	0.88[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6917705	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6941568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373582	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9377180	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390635	0.97[ASN][1000 genomes]
rs9390636	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390637	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390638	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390641	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9390642	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9390643	0.85[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9399676	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9399677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404006	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9404008	0.95[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	nsv1032690	chr6:149206106-149398712	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149247800-149268800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:149254800-149268800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:149255600-149268600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:149255800-149268800	Weak transcription	Brain Substantia Nigra	brain
5	chr6:149255800-149268800	Weak transcription	Fetal Kidney	kidney
6	chr6:149256400-149266400	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:149256600-149292600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:149257000-149268400	Weak transcription	Ovary	ovary
9	chr6:149257000-149285000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:149257200-149266000	Weak transcription	Fetal Lung	lung
11	chr6:149257600-149266400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr6:149257600-149269000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:149257600-149276200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:149259200-149269000	Weak transcription	Dnd41	blood
15	chr6:149260400-149268600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr6:149261400-149267200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:149261400-149285000	Weak transcription	Spleen	Spleen
18	chr6:149262000-149289600	Weak transcription	Aorta	Aorta
19	chr6:149262200-149276200	Weak transcription	Pancreas	Pancrea
20	chr6:149263400-149266400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr6:149263400-149268400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:149263400-149268600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:149263400-149268600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:149263400-149268800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr6:149263400-149268800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:149263400-149269200	Weak transcription	Left Ventricle	heart
27	chr6:149263400-149275400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:149263400-149275600	Weak transcription	Primary B cells from cord blood	blood
29	chr6:149263400-149275600	Weak transcription	Primary B cells from peripheral blood	blood
30	chr6:149263400-149275600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:149264000-149265600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:149264000-149266600	Enhancers	Rectal Smooth Muscle	rectum
33	chr6:149264000-149268600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:149264200-149265200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:149264200-149267000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:149264400-149265200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:149264400-149265200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:149264400-149265200	Enhancers	Osteobl	bone
39	chr6:149264400-149265800	Enhancers	HSMMtube	muscle
40	chr6:149264400-149266800	Enhancers	Colon Smooth Muscle	Colon
41	chr6:149264600-149268800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr6:149264800-149265200	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:149264800-149265600	Enhancers	Fetal Heart	heart
44	chr6:149265000-149266000	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links