Variant report

Variant	rs9403134
Chromosome Location	chr6:140302103-140302104
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140296686..140298552-chr6:140300622..140302808,2	K562	blood:
2	chr6:139693406..139696942-chr6:140299260..140302508,7	MCF-7	breast:
3	chr6:139694274..139697260-chr6:140301652..140304164,2	MCF-7	breast:
4	chr6:140287936..140290734-chr6:140300872..140302631,2	K562	blood:
5	chr6:139695460..139698700-chr6:140298901..140302123,4	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1028469	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10434888	0.95[CEU][hapmap]
rs10872525	0.95[CEU][hapmap]
rs12175776	0.81[EUR][1000 genomes]
rs12525047	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12526885	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12663217	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663483	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12665399	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13191189	0.88[CEU][hapmap]
rs13194747	0.86[EUR][1000 genomes]
rs13194827	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1416289	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069768	0.95[CEU][hapmap]
rs1933742	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1953788	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1953789	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs586246	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[ASN][1000 genomes]
rs587235	0.90[CHB][hapmap];0.82[JPT][hapmap];0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs592056	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs598498	0.85[CHB][hapmap];0.81[JPT][hapmap];0.96[ASN][1000 genomes]
rs616279	0.90[CHB][hapmap];0.82[JPT][hapmap];0.95[ASN][1000 genomes]
rs618515	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs622216	0.96[ASN][1000 genomes]
rs62429515	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62429516	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62429517	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs647968	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs648510	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs650774	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs67013338	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs679849	0.86[CHB][hapmap];0.82[JPT][hapmap];0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs680290	0.85[CHB][hapmap];0.96[ASN][1000 genomes]
rs681235	0.96[ASN][1000 genomes]
rs6926807	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6928433	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs724061	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743656	0.88[ASN][1000 genomes]
rs7758187	0.95[CEU][hapmap]
rs856646	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9373255	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9373256	0.95[CEU][hapmap]
rs9373259	1.00[CEU][hapmap]
rs9376482	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9376485	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9376494	0.95[CEU][hapmap]
rs9385888	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9385895	0.95[CEU][hapmap]
rs9385901	0.82[CEU][hapmap]
rs9385902	0.95[CEU][hapmap]
rs9385903	1.00[CEU][hapmap]
rs9389733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9389741	0.95[CEU][hapmap]
rs9399298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9399299	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9399304	0.90[CEU][hapmap]
rs9399308	1.00[CEU][hapmap]
rs9403135	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9403148	0.95[CEU][hapmap]
rs9495636	0.90[YRI][hapmap]
rs9495641	0.90[YRI][hapmap]

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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140292600-140306000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:140295200-140303000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:140295400-140302800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:140295400-140303000	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:140295600-140302600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:140295600-140303400	Weak transcription	Right Atrium	heart
7	chr6:140296400-140302600	Weak transcription	Fetal Lung	lung
8	chr6:140297400-140305800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:140298200-140303000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:140298200-140303000	Weak transcription	Pancreas	Pancrea
11	chr6:140298200-140305600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr6:140298200-140306200	Enhancers	Hela-S3	cervix
13	chr6:140298800-140305800	Enhancers	Osteobl	bone
14	chr6:140298800-140306000	Enhancers	NHLF	lung
15	chr6:140299400-140302600	Weak transcription	Esophagus	oesophagus
16	chr6:140299400-140302800	Weak transcription	HUVEC	blood vessel
17	chr6:140299400-140303000	Weak transcription	Fetal Muscle Leg	muscle
18	chr6:140299400-140303400	Weak transcription	Small Intestine	intestine
19	chr6:140299600-140302400	Weak transcription	A549	lung
20	chr6:140299600-140303200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr6:140299800-140303400	Weak transcription	Liver	Liver
22	chr6:140300400-140305200	Enhancers	Fetal Kidney	kidney
23	chr6:140300400-140305600	Enhancers	Fetal Heart	heart
24	chr6:140300600-140303000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:140300600-140303200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:140300600-140304200	Enhancers	K562	blood
27	chr6:140300600-140305600	Enhancers	NH-A	brain
28	chr6:140300600-140305800	Enhancers	HSMM	muscle
29	chr6:140300600-140306600	Enhancers	Placenta	Placenta
30	chr6:140300800-140302600	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr6:140300800-140304400	Enhancers	Placenta Amnion	Placenta Amnion
32	chr6:140300800-140305200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:140300800-140305800	Enhancers	HSMMtube	muscle
34	chr6:140301000-140302200	Weak transcription	Fetal Stomach	stomach
35	chr6:140301000-140302600	Weak transcription	Stomach Smooth Muscle	stomach
36	chr6:140301000-140306200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr6:140301000-140306200	Enhancers	NHDF-Ad	bronchial
38	chr6:140301200-140302200	Enhancers	Muscle Satellite Cultured Cells	--
39	chr6:140301200-140302400	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr6:140301200-140302600	Weak transcription	Rectal Smooth Muscle	rectum
41	chr6:140301400-140302600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:140301400-140302600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr6:140301600-140303000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr6:140301600-140304800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:140301600-140305400	Enhancers	Fetal Intestine Small	intestine
46	chr6:140301800-140302600	Weak transcription	Fetal Intestine Large	intestine
47	chr6:140301800-140303000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:140301800-140303000	Enhancers	Aorta	Aorta
49	chr6:140301800-140303000	Enhancers	Colon Smooth Muscle	Colon
50	chr6:140301800-140303200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links