Variant report

Variant	rs10778464
Chromosome Location	chr12:106743350-106743351
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:106639618..106642375-chr12:106742667..106744528,3	MCF-7	breast:
2	chr12:106740945..106746236-chr12:106747854..106753428,6	MCF-7	breast:
3	chr12:106741271..106744230-chr12:106772582..106774357,2	K562	blood:
4	chr12:106739203..106740891-chr12:106742866..106745239,2	K562	blood:
5	chr12:106739391..106742209-chr12:106742866..106744499,2	K562	blood:
6	chr12:106742846..106744824-chr12:107347337..107349795,2	MCF-7	breast:
7	chr12:106739208..106741213-chr12:106743034..106745596,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000151135	Chromatin interaction
ENSG00000260329	Chromatin interaction
ENSG00000136026	Chromatin interaction
ENSG00000013503	Chromatin interaction
ENSG00000258355	Chromatin interaction

Extended variants
information (count: 129 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10047654	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10507211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10746059	0.85[ASN][1000 genomes]
rs10746060	0.81[ASN][1000 genomes]
rs10778466	0.81[ASN][1000 genomes]
rs10778468	0.81[ASN][1000 genomes]
rs10778470	0.81[ASN][1000 genomes]
rs10778471	0.81[ASN][1000 genomes]
rs10778473	0.81[ASN][1000 genomes]
rs10778474	0.81[ASN][1000 genomes]
rs10778475	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10778477	0.90[EUR][1000 genomes]
rs10778478	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10778480	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10778481	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861571	0.92[CEU][hapmap]
rs10861577	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10861578	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10861579	0.88[ASN][1000 genomes]
rs10861580	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10861581	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10861582	0.85[ASN][1000 genomes]
rs10861583	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10861585	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs10861586	0.85[ASN][1000 genomes]
rs10861587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10861588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs10861589	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10861590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861592	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs10861593	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10861594	1.00[CEU][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861597	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861598	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861599	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861601	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10861604	0.81[ASN][1000 genomes]
rs10861609	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10861613	0.90[EUR][1000 genomes]
rs11112933	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs11112940	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112942	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112943	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112945	0.92[ASN][1000 genomes]
rs11112948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112949	0.85[ASN][1000 genomes]
rs11112951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11112952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11112953	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11112956	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11112957	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11112971	0.81[ASN][1000 genomes]
rs11112979	0.81[ASN][1000 genomes]
rs11112980	0.81[ASN][1000 genomes]
rs11112986	0.81[ASN][1000 genomes]
rs11112995	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11113011	0.84[EUR][1000 genomes]
rs1134577	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11611252	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11611815	1.00[ASN][1000 genomes]
rs11615682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs11835357	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11835362	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12298876	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12305705	0.81[ASN][1000 genomes]
rs12309708	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12309758	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12312915	0.81[ASN][1000 genomes]
rs12370430	0.88[CEU][hapmap]
rs12422988	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12424952	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.92[ASN][1000 genomes]
rs17218490	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17221107	0.90[EUR][1000 genomes]
rs17284674	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17285274	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1921952	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2141775	0.85[EUR][1000 genomes]
rs2243455	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28669886	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2888888	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34955444	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3851632	0.81[ASN][1000 genomes]
rs3851633	0.81[ASN][1000 genomes]
rs4509864	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55689816	0.85[ASN][1000 genomes]
rs58297001	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58767490	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60224628	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60635749	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60839334	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61940334	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61940335	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61940342	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61941917	0.81[ASN][1000 genomes]
rs61941922	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61943670	0.96[ASN][1000 genomes]
rs61943672	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61943694	0.81[ASN][1000 genomes]
rs6539268	0.81[ASN][1000 genomes]
rs6539269	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6539270	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6539271	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67911933	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7132744	0.82[ASN][1000 genomes]
rs7132971	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7134615	0.81[ASN][1000 genomes]
rs7134881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7135054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7137445	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7139139	0.81[ASN][1000 genomes]
rs7139249	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7297873	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7303873	0.81[ASN][1000 genomes]
rs7306012	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7306277	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7306326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7308541	0.81[ASN][1000 genomes]
rs7309020	0.81[ASN][1000 genomes]
rs7310703	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7311957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7313040	0.90[EUR][1000 genomes]
rs7315549	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7961133	0.92[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.88[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7963213	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7965520	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7969743	0.81[ASN][1000 genomes]
rs7971581	0.81[ASN][1000 genomes]
rs7976305	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10778464	PIGA	trans	parietal	SCAN
rs10778464	CKAP4	cis	cerebellum	SCAN

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:106705200-106743400	Strong transcription	Primary T cells fromperipheralblood	blood
2	chr12:106723600-106751000	Weak transcription	Fetal Kidney	kidney
3	chr12:106724000-106751000	Weak transcription	Fetal Brain Female	brain
4	chr12:106731200-106743600	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr12:106735800-106751000	Weak transcription	Colonic Mucosa	Colon
6	chr12:106736200-106751400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr12:106736600-106751000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr12:106736800-106745000	Weak transcription	Psoas Muscle	Psoas
9	chr12:106736800-106746600	Weak transcription	Pancreas	Pancrea
10	chr12:106736800-106751000	Weak transcription	Right Ventricle	heart
11	chr12:106737000-106743800	Weak transcription	Aorta	Aorta
12	chr12:106737000-106751000	Weak transcription	Fetal Thymus	thymus
13	chr12:106737200-106743400	Weak transcription	NH-A	brain
14	chr12:106737200-106750800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr12:106737200-106751000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr12:106737200-106751000	Weak transcription	Fetal Lung	lung
17	chr12:106737400-106750800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr12:106737400-106750800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr12:106737400-106751000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr12:106737600-106743600	Weak transcription	HepG2	liver
21	chr12:106737600-106750800	Weak transcription	Fetal Intestine Small	intestine
22	chr12:106737600-106751000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr12:106737600-106751000	Weak transcription	Fetal Intestine Large	intestine
24	chr12:106737800-106750800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr12:106738400-106751000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr12:106738600-106744200	Weak transcription	Primary hematopoietic stem cells	blood
27	chr12:106738600-106750800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr12:106738600-106750800	Weak transcription	Fetal Heart	heart
29	chr12:106738800-106751000	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr12:106739400-106743600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr12:106739800-106751000	Weak transcription	Fetal Muscle Leg	muscle
32	chr12:106740000-106743400	Strong transcription	Skeletal Muscle Female	skeletal muscle
33	chr12:106740200-106751000	Weak transcription	Fetal Stomach	stomach
34	chr12:106740400-106743800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr12:106740400-106745200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr12:106740400-106746600	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr12:106740400-106750400	Weak transcription	Liver	Liver
38	chr12:106740400-106750800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr12:106740400-106750800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr12:106740400-106751000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr12:106740400-106751000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr12:106740400-106751000	Weak transcription	HSMMtube	muscle
43	chr12:106740400-106751400	Weak transcription	Esophagus	oesophagus
44	chr12:106740400-106751400	Weak transcription	Lung	lung
45	chr12:106740400-106751400	Weak transcription	Spleen	Spleen
46	chr12:106740600-106744400	Weak transcription	Thymus	Thymus
47	chr12:106740600-106750800	Weak transcription	Brain Hippocampus Middle	brain
48	chr12:106740600-106750800	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr12:106740600-106751000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr12:106740600-106751400	Weak transcription	Left Ventricle	heart

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