Variant report

Variant	rs3768444
Chromosome Location	chr1:172504589-172504590
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172411084..172422561-chr1:172496524..172504623,44	MCF-7	breast:
2	chr1:172503645..172508691-chr1:172518673..172522927,5	MCF-7	breast:
3	chr1:172419256..172421468-chr1:172500783..172504604,4	K562	blood:
4	chr1:172503248..172504952-chr1:172533651..172536311,2	K562	blood:
5	chr1:172503233..172505429-chr1:172517362..172521428,4	MCF-7	breast:
6	chr1:172503516..172505222-chr1:172582526..172585193,2	K562	blood:
7	chr1:172418694..172420981-chr1:172502636..172504604,2	K562	blood:
8	chr1:172412087..172424934-chr1:172497120..172505334,59	MCF-7	breast:
9	chr1:172410326..172414934-chr1:172499314..172504781,7	K562	blood:
10	chr1:172411064..172415256-chr1:172501216..172504781,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000180999	Chromatin interaction
ENSG00000094975	Chromatin interaction
ENSG00000251943	Chromatin interaction
ENSG00000135845	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10157500	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10157519	0.85[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10218613	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10489280	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10752994	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.91[ASN][1000 genomes]
rs10798040	0.82[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10911856	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912058	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912080	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10912083	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10912084	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11805370	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12087284	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12121051	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12146100	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1894625	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1894626	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs2097492	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2097493	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2097494	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2097498	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2157420	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2227188	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2285144	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2422144	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2472550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2472552	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2639621	0.81[EUR][1000 genomes]
rs3752515	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4145436	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4433434	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs5014539	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6424973	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6425007	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6656713	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6686080	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6686157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6695152	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7525372	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7531652	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs7539231	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7539443	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs763108	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9425646	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9943276	0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3768444	SUCO	cis	Muscle Skeletal	GTEx

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172500400-172504600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr1:172500800-172504600	Active TSS	Fetal Brain Female	brain
3	chr1:172500800-172504800	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr1:172501000-172504600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr1:172501000-172504600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:172501000-172504600	Active TSS	Fetal Intestine Large	intestine
7	chr1:172501000-172504600	Active TSS	NH-A	brain
8	chr1:172501000-172505000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:172501000-172505000	Active TSS	Breast Myoepithelial Primary Cells	Breast
10	chr1:172501200-172505000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:172501200-172505400	Active TSS	Placenta Amnion	Placenta Amnion
12	chr1:172502200-172505000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr1:172503000-172504600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
14	chr1:172503000-172504800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:172503000-172505000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:172503200-172504800	Flanking Active TSS	Primary T cells from cord blood	blood
17	chr1:172503200-172504800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
18	chr1:172503200-172504800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr1:172503200-172506000	Flanking Active TSS	Dnd41	blood
20	chr1:172503200-172509200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr1:172503400-172504600	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr1:172503400-172505800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
23	chr1:172503400-172511200	Weak transcription	Spleen	Spleen
24	chr1:172503400-172511400	Weak transcription	Gastric	stomach
25	chr1:172503400-172528600	Weak transcription	Aorta	Aorta
26	chr1:172503400-172528600	Weak transcription	Lung	lung
27	chr1:172503600-172504600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
28	chr1:172503600-172504600	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr1:172503600-172504600	Flanking Active TSS	A549	lung
30	chr1:172503600-172504800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr1:172503600-172504800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
32	chr1:172503600-172504800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr1:172503600-172504800	Enhancers	Brain Cingulate Gyrus	brain
34	chr1:172503600-172504800	Enhancers	Rectal Smooth Muscle	rectum
35	chr1:172503600-172505200	Enhancers	Brain Angular Gyrus	brain
36	chr1:172503600-172505400	Enhancers	Primary B cells from peripheral blood	blood
37	chr1:172503600-172505400	Enhancers	Brain Hippocampus Middle	brain
38	chr1:172503600-172506000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr1:172503600-172506000	Enhancers	Liver	Liver
40	chr1:172503600-172506200	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr1:172503600-172507000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr1:172503600-172507000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr1:172503600-172507000	Weak transcription	Ovary	ovary
44	chr1:172503600-172507000	Weak transcription	Pancreas	Pancrea
45	chr1:172503600-172508200	Enhancers	Primary T helper naive cells from peripheral blood	blood
46	chr1:172503600-172511400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr1:172503600-172511400	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr1:172503600-172513600	Weak transcription	Psoas Muscle	Psoas
49	chr1:172503600-172520200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr1:172503600-172531600	Weak transcription	Esophagus	oesophagus

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