Variant report

Variant	rs7163302
Chromosome Location	chr15:57116178-57116179
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57112037..57114101-chr15:57115817..57118029,2	K562	blood:
2	chr15:57106197..57110196-chr15:57111997..57118015,6	K562	blood:
3	chr15:57114282..57116415-chr15:57117553..57119932,2	K562	blood:
4	chr15:57110627..57113537-chr15:57115289..57118029,2	K562	blood:
5	chr15:57115805..57118368-chr15:57128099..57130760,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1012321	0.91[EUR][1000 genomes]
rs10450961	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10518878	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10851612	0.82[CEU][hapmap]
rs1115019	0.94[CEU][hapmap]
rs11855646	0.86[EUR][1000 genomes]
rs11858368	0.87[EUR][1000 genomes]
rs13379960	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1430819	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1441235	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1441236	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1612205	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1647378	0.90[ASN][1000 genomes]
rs1647392	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657922	0.94[CEU][hapmap]
rs1657930	0.91[AFR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1657934	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657935	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657936	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657937	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657938	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1657939	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1660948	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1660950	0.93[ASN][1000 genomes]
rs1660951	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1660961	0.89[EUR][1000 genomes]
rs1967352	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1967353	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2161933	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2163369	0.92[EUR][1000 genomes]
rs2278613	0.88[CEU][hapmap]
rs2414487	0.87[EUR][1000 genomes]
rs28371400	0.86[EUR][1000 genomes]
rs28468978	0.87[EUR][1000 genomes]
rs28568712	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28609621	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28736360	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28874022	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4313751	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4774893	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4774895	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56965085	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6493886	0.82[CEU][hapmap]
rs6493892	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6493893	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6493894	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67114210	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67278720	0.83[EUR][1000 genomes]
rs67622899	0.88[EUR][1000 genomes]
rs68083905	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7166876	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7175191	0.94[CEU][hapmap]
rs7178196	0.80[EUR][1000 genomes]
rs7182691	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72747165	0.89[EUR][1000 genomes]
rs7359253	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8026149	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8040866	0.92[EUR][1000 genomes]
rs8042606	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9919955	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7163302	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57110000-57118600	Weak transcription	Aorta	Aorta
2	chr15:57110000-57138600	Weak transcription	Left Ventricle	heart
3	chr15:57112600-57116600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:57113000-57130400	Weak transcription	Thymus	Thymus
5	chr15:57114000-57117000	Enhancers	HSMMtube	muscle
6	chr15:57114200-57117000	Enhancers	HSMM	muscle
7	chr15:57114400-57116400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr15:57114400-57123800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:57114600-57116200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr15:57114600-57116400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:57114600-57116600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:57114600-57116600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr15:57114600-57116600	Weak transcription	Psoas Muscle	Psoas
14	chr15:57114600-57116800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:57114600-57118800	Weak transcription	NHLF	lung
16	chr15:57114600-57121600	Weak transcription	Brain Germinal Matrix	brain
17	chr15:57114600-57123600	Weak transcription	Colon Smooth Muscle	Colon
18	chr15:57114600-57123800	Weak transcription	Brain Hippocampus Middle	brain
19	chr15:57114600-57124200	Weak transcription	Fetal Stomach	stomach
20	chr15:57114600-57124400	Weak transcription	Fetal Thymus	thymus
21	chr15:57114800-57116600	Weak transcription	HMEC	breast
22	chr15:57115800-57117200	Enhancers	Fetal Muscle Leg	muscle
23	chr15:57115800-57117600	Enhancers	Fetal Muscle Trunk	muscle

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