Variant report

Variant	rs4796107
Chromosome Location	chr17:34102775-34102776
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:34101546..34103557-chr17:34109356..34111620,2	MCF-7	breast:
2	chr17:34091515..34093901-chr17:34102448..34104638,2	MCF-7	breast:
3	chr17:34101663..34103354-chr17:34121215..34124196,2	MCF-7	breast:
4	chr17:34094026..34096970-chr17:34100464..34102783,3	K562	blood:
5	chr17:34100630..34103583-chr17:34107031..34108595,2	K562	blood:

Variant related genes	Relation type
ENSG00000129270	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs11080359	0.84[GIH][hapmap]
rs11650409	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs11652536	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs11653051	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs11653282	0.87[CEU][hapmap];0.95[TSI][hapmap]
rs11655533	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs11657908	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs11658222	0.80[ASN][1000 genomes]
rs11868785	0.88[CEU][hapmap];0.95[TSI][hapmap]
rs2251660	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs2280787	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs2280789	0.88[CEU][hapmap];0.81[TSI][hapmap]
rs2306630	0.88[CEU][hapmap];0.90[TSI][hapmap]
rs2376287	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs2526327	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs2526328	0.85[JPT][hapmap]
rs2735475	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs3785764	1.00[CEU][hapmap];0.82[TSI][hapmap]
rs3809769	1.00[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap]
rs3817655	0.88[CEU][hapmap];0.85[TSI][hapmap]
rs3826404	0.82[MEX][hapmap]
rs4251702	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs4251719	0.88[CEU][hapmap];0.95[TSI][hapmap]
rs4251727	0.83[ASN][1000 genomes]
rs4251729	0.83[ASN][1000 genomes]
rs4251751	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4251752	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4251769	0.88[CEU][hapmap];0.95[TSI][hapmap]
rs4795088	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4795089	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4795091	0.80[ASN][1000 genomes]
rs4795092	0.80[ASN][1000 genomes]
rs4795095	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs4795096	0.88[CEU][hapmap];0.81[TSI][hapmap]
rs4795101	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs4796108	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4796112	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.95[TSI][hapmap]
rs4796114	0.88[CEU][hapmap];0.92[JPT][hapmap]
rs4796115	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs4796118	0.86[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap]
rs4796119	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap]
rs4796120	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap]
rs4796123	0.88[CEU][hapmap];0.93[CHB][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap]
rs4796136	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs4796138	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs7213636	0.87[JPT][hapmap]
rs9303691	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap]
rs9303692	0.88[CEU][hapmap];0.90[TSI][hapmap]
rs9754	0.87[JPT][hapmap]
rs9889274	0.86[CHB][hapmap];0.95[TSI][hapmap]
rs9889874	0.88[CEU][hapmap];0.90[TSI][hapmap]
rs9898132	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap]
rs9898152	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap]
rs9899866	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap]
rs9899870	0.87[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap]
rs9900236	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs9904675	0.87[CEU][hapmap];0.92[CHB][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs9907295	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs9908011	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs9909050	1.00[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap]
rs9911598	0.80[ASN][1000 genomes]
rs9912284	0.86[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap]
rs9912571	0.86[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap]
rs9912793	0.85[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap]
rs9913488	0.87[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[TSI][hapmap]
rs9913559	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs9914401	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4796107	TAF15	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34091800-34103600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr17:34092400-34114200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr17:34097600-34102800	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr17:34098800-34102800	Enhancers	H1 Cell Line	embryonic stem cell
5	chr17:34098800-34102800	Enhancers	Primary hematopoietic stem cells	blood
6	chr17:34098800-34103600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr17:34099400-34103000	Enhancers	Fetal Thymus	thymus
8	chr17:34100000-34102800	Enhancers	Fetal Lung	lung
9	chr17:34100000-34103000	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr17:34100200-34103000	Enhancers	Fetal Muscle Leg	muscle
11	chr17:34100400-34104600	Enhancers	Stomach Mucosa	stomach
12	chr17:34100600-34102800	Enhancers	Brain Anterior Caudate	brain
13	chr17:34100600-34102800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr17:34100600-34102800	Enhancers	Fetal Intestine Small	intestine
15	chr17:34100600-34102800	Enhancers	Rectal Mucosa Donor 29	rectum
16	chr17:34100600-34102800	Enhancers	Right Atrium	heart
17	chr17:34100600-34103200	Enhancers	Duodenum Mucosa	Duodenum
18	chr17:34100800-34102800	Enhancers	Colonic Mucosa	Colon
19	chr17:34100800-34102800	Enhancers	Fetal Brain Male	brain
20	chr17:34100800-34102800	Enhancers	Hela-S3	cervix
21	chr17:34101000-34102800	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr17:34101000-34102800	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr17:34101200-34102800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr17:34101400-34103000	Enhancers	HUVEC	blood vessel
25	chr17:34101600-34102800	Flanking Active TSS	Rectal Smooth Muscle	rectum
26	chr17:34101600-34102800	Genic enhancers	NHEK	skin
27	chr17:34101600-34107200	Weak transcription	Brain Substantia Nigra	brain
28	chr17:34101800-34102800	Flanking Active TSS	Colon Smooth Muscle	Colon
29	chr17:34101800-34102800	Genic enhancers	HMEC	breast
30	chr17:34102000-34102800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr17:34102000-34103200	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr17:34102000-34104000	Weak transcription	Fetal Intestine Large	intestine
33	chr17:34102000-34105800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr17:34102000-34110200	Weak transcription	Brain Angular Gyrus	brain
35	chr17:34102200-34102800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr17:34102200-34102800	Enhancers	Fetal Brain Female	brain
37	chr17:34102200-34104000	Weak transcription	HSMM	muscle
38	chr17:34102200-34105800	Weak transcription	Esophagus	oesophagus
39	chr17:34102400-34102800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr17:34102400-34110400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr17:34102400-34110400	Weak transcription	Aorta	Aorta
42	chr17:34102600-34102800	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr17:34102600-34102800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr17:34102600-34102800	Flanking Active TSS	Adipose Nuclei	Adipose
45	chr17:34102600-34102800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
46	chr17:34102600-34102800	Enhancers	Fetal Stomach	stomach
47	chr17:34102600-34103000	Enhancers	Brain Germinal Matrix	brain
48	chr17:34102600-34103000	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr17:34102600-34103800	Weak transcription	Lung	lung
50	chr17:34102600-34104000	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links