Variant report

Variant	rs3762090
Chromosome Location	chr10:97913378-97913379
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:97912946-97914357	K562	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97912254..97914482-chr10:97916412..97918708,2	K562	blood:
2	chr10:97889731..97891560-chr10:97911556..97915285,3	K562	blood:
3	chr10:97802573..97805014-chr10:97910795..97914340,3	K562	blood:
4	chr10:97905728..97907615-chr10:97912207..97914595,2	K562	blood:
5	chr10:97906115..97908290-chr10:97911726..97914595,2	K562	blood:
6	chr10:97889876..97892137-chr10:97912175..97915299,3	MCF-7	breast:

No data

Variant related genes	Relation type
ZNF518A	TF binding region
ENSG00000107443	Chromatin interaction
ENSG00000226688	Chromatin interaction
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10128368	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1023331	0.91[CEU][hapmap];0.80[TSI][hapmap]
rs1029215	0.89[ASW][hapmap];0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.90[TSI][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10509704	0.92[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10509706	0.92[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10732776	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10736098	0.83[CEU][hapmap];0.82[TSI][hapmap]
rs10748653	0.81[CEU][hapmap]
rs10748659	0.88[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10748660	0.92[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10786258	0.81[CEU][hapmap]
rs10786259	0.81[CEU][hapmap]
rs10786260	0.81[CEU][hapmap]
rs10882731	0.90[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10882732	0.92[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882742	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11188585	0.92[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11188633	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11188634	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11188642	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11188643	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11188655	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11188660	0.83[AFR][1000 genomes]
rs1172937	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1172940	0.92[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1172943	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1172946	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1172952	0.98[ASN][1000 genomes]
rs1172953	0.87[ASN][1000 genomes]
rs1172955	0.83[ASN][1000 genomes]
rs1172958	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1172960	0.92[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1172961	0.92[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1172963	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1177749	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12766762	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12782206	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1344356	0.93[ASN][1000 genomes]
rs1414918	0.92[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1414919	0.89[ASW][hapmap];0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1414921	0.84[CEU][hapmap]
rs1414922	0.84[CEU][hapmap]
rs1624551	0.92[ASN][1000 genomes]
rs1764305	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2446023	0.96[CEU][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes]
rs2484912	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs2901894	0.94[ASN][1000 genomes]
rs3748226	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7084542	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7085712	0.81[CEU][hapmap]
rs7099399	0.92[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs747259	0.83[CHB][hapmap]
rs7475754	0.92[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7901611	0.90[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3762090	MYOF	cis	parietal	SCAN
rs3762090	GPR120	cis	cerebellum	SCAN
rs3762090	CRTAC1	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97890800-97917200	Weak transcription	Small Intestine	intestine
2	chr10:97890800-97922400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:97891000-97913400	Weak transcription	Brain Germinal Matrix	brain
4	chr10:97891000-97914000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:97891000-97927000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:97891400-97916400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:97891400-97918200	Weak transcription	NHLF	lung
8	chr10:97891600-97913400	Weak transcription	Fetal Heart	heart
9	chr10:97891800-97921400	Weak transcription	Stomach Mucosa	stomach
10	chr10:97892400-97924800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:97892800-97924200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr10:97895200-97917600	Weak transcription	NH-A	brain
13	chr10:97897800-97916600	Weak transcription	HMEC	breast
14	chr10:97900400-97916400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr10:97903200-97923000	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr10:97903600-97920200	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr10:97903800-97916200	Weak transcription	HUVEC	blood vessel
18	chr10:97904000-97918800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:97906000-97914400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:97908600-97913400	Weak transcription	Hela-S3	cervix
21	chr10:97909000-97918800	Strong transcription	HepG2	liver
22	chr10:97909400-97914800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr10:97910000-97917800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr10:97910600-97914200	Strong transcription	Fetal Intestine Small	intestine
25	chr10:97910600-97917000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr10:97910600-97918200	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr10:97910600-97918400	Strong transcription	Liver	Liver
28	chr10:97910600-97918600	Strong transcription	Primary B cells from peripheral blood	blood
29	chr10:97910600-97918600	Strong transcription	Left Ventricle	heart
30	chr10:97910600-97919200	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr10:97910600-97919800	Strong transcription	Dnd41	blood
32	chr10:97910800-97914800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr10:97910800-97915000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr10:97910800-97917200	Strong transcription	Primary T cells from cord blood	blood
35	chr10:97910800-97918600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr10:97910800-97918800	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr10:97910800-97918800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr10:97910800-97919200	Strong transcription	Fetal Intestine Large	intestine
39	chr10:97910800-97920200	Strong transcription	Fetal Muscle Leg	muscle
40	chr10:97910800-97922200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr10:97911000-97913800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr10:97911000-97913800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
43	chr10:97911000-97914000	Strong transcription	Rectal Smooth Muscle	rectum
44	chr10:97911000-97914200	Strong transcription	Aorta	Aorta
45	chr10:97911000-97914400	Strong transcription	GM12878-XiMat	blood
46	chr10:97911000-97915000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:97911000-97915200	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr10:97911000-97917000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr10:97911000-97917000	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr10:97911000-97917200	Strong transcription	Colon Smooth Muscle	Colon

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