Variant report

Variant	rs8026702
Chromosome Location	chr15:57482766-57482767
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10467927	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs10467928	0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10467929	0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11071308	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11853810	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11856210	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];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11856411	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs13379847	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs1430820	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1430822	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs16977243	0.86[TSI][hapmap]
rs16977270	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs16977278	0.83[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16977306	0.94[CEU][hapmap];0.97[EUR][1000 genomes]
rs16977374	0.90[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs1841697	0.89[EUR][1000 genomes]
rs2169467	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2414493	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs2591068	0.88[CEU][hapmap]
rs2593211	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2593249	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2593250	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2593252	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs2615226	0.84[ASN][1000 genomes]
rs2615227	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2703593	0.94[CEU][hapmap];0.86[TSI][hapmap]
rs2703595	0.88[CEU][hapmap];0.86[TSI][hapmap]
rs2703614	0.83[CHB][hapmap];0.91[JPT][hapmap];0.94[TSI][hapmap]
rs2733310	0.94[CEU][hapmap]
rs2733323	0.86[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]
rs2733333	0.83[CHB][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap]
rs2733334	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28445470	0.85[ASN][1000 genomes]
rs28536671	0.97[EUR][1000 genomes]
rs28653088	0.84[ASN][1000 genomes]
rs28781690	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3803453	0.84[ASW][hapmap];0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];0.84[ASN][1000 genomes]
rs4774915	0.85[ASN][1000 genomes]
rs4774916	0.85[ASN][1000 genomes]
rs6493900	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs6493907	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7163126	0.97[EUR][1000 genomes]
rs7163267	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7164298	0.82[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.84[ASN][1000 genomes]
rs7164914	0.83[ASN][1000 genomes]
rs7171073	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs7173477	0.85[ASN][1000 genomes]
rs7173748	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7176873	0.90[JPT][hapmap];0.89[TSI][hapmap]
rs7178833	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs7179311	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs7180558	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs7181399	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs720290	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs8024901	0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs8031640	0.90[JPT][hapmap]
rs8032615	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs8034066	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs8034502	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs8034744	0.94[CEU][hapmap];0.94[TSI][hapmap];0.95[EUR][1000 genomes]
rs8034843	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.81[MEX][hapmap];0.82[MKK][hapmap];0.80[TSI][hapmap];0.84[ASN][1000 genomes]
rs8035916	0.89[JPT][hapmap]
rs8037956	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs8039176	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs8039899	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs9302200	0.89[TSI][hapmap]
rs9672676	1.00[CEU][hapmap];0.81[MEX][hapmap];0.94[TSI][hapmap];0.97[EUR][1000 genomes]
rs9806170	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs9806199	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs997683	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

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	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
2	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs8026702	LOC283663	Cis_1M	lymphoblastoid	RTeQTL
rs8026702	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr15:57444400-57485600	Weak transcription	Placenta	Placenta
3	chr15:57444400-57507400	Weak transcription	K562	blood
4	chr15:57444600-57490200	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr15:57444800-57484200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:57444800-57484200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr15:57447000-57484600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:57448000-57483800	Weak transcription	Lung	lung
9	chr15:57450800-57491000	Weak transcription	Left Ventricle	heart
10	chr15:57451000-57487800	Weak transcription	Psoas Muscle	Psoas
11	chr15:57451000-57490800	Weak transcription	NHEK	skin
12	chr15:57451200-57484200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr15:57451200-57484200	Weak transcription	Esophagus	oesophagus
14	chr15:57451200-57490400	Weak transcription	Ovary	ovary
15	chr15:57451600-57491200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr15:57452400-57490400	Weak transcription	Fetal Brain Female	brain
17	chr15:57453800-57485400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr15:57453800-57524600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr15:57457200-57499400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:57458200-57505200	Strong transcription	Fetal Thymus	thymus
21	chr15:57459200-57488600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr15:57459200-57492600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr15:57459800-57490200	Weak transcription	HSMMtube	muscle
24	chr15:57460000-57484200	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr15:57460400-57484000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr15:57460400-57486400	Weak transcription	Fetal Muscle Trunk	muscle
27	chr15:57461400-57484400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr15:57462400-57485400	Weak transcription	Fetal Kidney	kidney
29	chr15:57463800-57484200	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr15:57463800-57489200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr15:57464000-57484400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr15:57464200-57485000	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr15:57465000-57484200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:57465000-57484200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr15:57468800-57484400	Weak transcription	Spleen	Spleen
36	chr15:57469000-57488600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr15:57469800-57483400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr15:57470800-57484200	Weak transcription	Brain Hippocampus Middle	brain
39	chr15:57473600-57491200	Weak transcription	Gastric	stomach
40	chr15:57474600-57484200	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:57475600-57484200	Weak transcription	Osteobl	bone
42	chr15:57475800-57491000	Weak transcription	Colon Smooth Muscle	Colon
43	chr15:57476000-57484400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr15:57476200-57490200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr15:57476200-57490400	Weak transcription	HUVEC	blood vessel
46	chr15:57476200-57491200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr15:57476800-57484200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr15:57476800-57484400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr15:57476800-57485400	Weak transcription	Brain Anterior Caudate	brain
50	chr15:57476800-57490000	Weak transcription	Small Intestine	intestine

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