Variant report

Variant	rs4796108
Chromosome Location	chr17:34126091-34126092
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr17:34126072-34126302	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr17:34126060-34126339	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr17:34092527..34095992-chr17:34125628..34128748,3	K562	blood:
2	chr17:34121512..34125542-chr17:34125807..34130533,7	K562	blood:
3	chr17:34125276..34127850-chr17:34135467..34137774,3	MCF-7	breast:
4	chr17:34112301..34113855-chr17:34126059..34127823,2	K562	blood:
5	chr17:34106307..34108184-chr17:34123569..34126227,2	MCF-7	breast:

Variant related genes	Relation type
MMP28	TF binding region
ENSG00000267578	Chromatin interaction
ENSG00000129270	Chromatin interaction
ENSG00000172660	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs11080363	0.85[CEU][hapmap]
rs11650409	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs11652192	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11652536	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs11653051	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs11653282	1.00[CEU][hapmap]
rs11655533	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs11657908	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs11658222	0.86[EUR][1000 genomes]
rs11868785	0.86[CEU][hapmap]
rs11871113	0.82[CEU][hapmap]
rs2014839	0.84[EUR][1000 genomes]
rs2251660	0.88[JPT][hapmap]
rs2280787	0.88[JPT][hapmap]
rs2280789	0.86[CEU][hapmap]
rs2306630	0.86[CEU][hapmap]
rs2376287	0.88[JPT][hapmap]
rs2526327	0.88[JPT][hapmap]
rs2526328	0.93[JPT][hapmap]
rs2735475	0.88[JPT][hapmap]
rs3760326	0.81[AMR][1000 genomes]
rs3785764	1.00[CEU][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3809769	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs3817655	0.86[CEU][hapmap]
rs4251702	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4251719	0.86[CEU][hapmap]
rs4251727	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4251729	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4251751	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4251752	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4251769	0.86[CEU][hapmap]
rs4795088	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4795089	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4795091	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4795092	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4795095	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs4795096	0.86[CEU][hapmap]
rs4795101	0.88[JPT][hapmap]
rs4796107	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]
rs4796109	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4796112	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes]
rs4796113	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4796114	0.86[CEU][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4796115	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4796118	0.94[JPT][hapmap]
rs4796119	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs4796120	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs4796123	0.86[CEU][hapmap];0.81[CHB][hapmap]
rs4796136	0.88[JPT][hapmap]
rs4796138	0.88[JPT][hapmap]
rs7213636	0.88[JPT][hapmap]
rs9303691	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs9303692	0.86[CEU][hapmap]
rs9754	0.88[JPT][hapmap]
rs9889874	0.86[CEU][hapmap]
rs9894083	0.83[AMR][1000 genomes]
rs9898132	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs9898152	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs9899866	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9899870	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9900236	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9904675	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs9907295	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9907588	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9908011	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9909050	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs9911598	0.86[EUR][1000 genomes]
rs9912284	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9912571	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9912793	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs9913488	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9913559	0.88[JPT][hapmap]
rs9914401	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4796108	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs4796108	RDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34123000-34126800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr17:34123000-34127000	Weak transcription	Lung	lung
3	chr17:34123000-34127000	Weak transcription	Right Atrium	heart
4	chr17:34123000-34127000	Weak transcription	Spleen	Spleen
5	chr17:34123000-34127200	Weak transcription	Aorta	Aorta
6	chr17:34123200-34126200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr17:34123200-34126400	Weak transcription	Colon Smooth Muscle	Colon
8	chr17:34123200-34126800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr17:34123200-34126800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr17:34123200-34127000	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr17:34123200-34127000	Weak transcription	Left Ventricle	heart
12	chr17:34123200-34127200	Weak transcription	Right Ventricle	heart
13	chr17:34123400-34126200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr17:34123400-34126600	Weak transcription	Adipose Nuclei	Adipose
15	chr17:34123400-34126600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr17:34123400-34127000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr17:34123600-34126800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr17:34123600-34126800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr17:34123600-34126800	Weak transcription	HMEC	breast
20	chr17:34123600-34127000	Weak transcription	Primary hematopoietic stem cells	blood
21	chr17:34124000-34126800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr17:34124800-34126600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr17:34124800-34126800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr17:34125600-34126200	Enhancers	Brain Germinal Matrix	brain
25	chr17:34125600-34126800	Weak transcription	Hela-S3	cervix
26	chr17:34125600-34129400	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr17:34126000-34126400	Bivalent Enhancer	NHDF-Ad	bronchial

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