Variant report

Variant	rs2490733
Chromosome Location	chr10:94602822-94602823
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:94439735..94442066-chr10:94601811..94604673,2	K562	blood:
2	chr10:94602547..94603439-chr10:94639714..94640841,5	MCF-7	breast:
3	chr10:94602572..94603473-chr10:95116955..95117673,2	K562	blood:
4	chr10:94601204..94605771-chr10:94608144..94610303,4	MCF-7	breast:
5	chr10:94602628..94603467-chr10:94639636..94640258,2	K562	blood:

Variant related genes	Relation type
ENSG00000138190	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1033976	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10466167	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736071	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736072	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10748586	1.00[ASW][hapmap];0.96[CEU][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786057	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187183	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1326329	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1326331	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326332	0.95[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409387	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1536329	1.00[AFR][1000 genomes]
rs1960367	0.81[AMR][1000 genomes]
rs2025730	1.00[ASW][hapmap];0.96[CEU][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094232	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2148361	1.00[ASW][hapmap];0.96[CEU][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182451	0.95[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246382	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246701	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2250393	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422070	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422072	0.88[CEU][hapmap];0.93[GIH][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2488062	1.00[ASN][1000 genomes]
rs2490732	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490740	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490742	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490744	1.00[ASN][1000 genomes]
rs2497322	1.00[CEU][hapmap];0.96[GIH][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497323	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497324	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497326	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497327	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497331	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497339	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497348	1.00[CEU][hapmap];0.96[GIH][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497350	1.00[ASN][1000 genomes]
rs4517429	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933241	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933242	0.96[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933749	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933752	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583846	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583848	0.81[EUR][1000 genomes]
rs7069070	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7070025	0.88[CEU][hapmap];0.93[GIH][hapmap];0.89[MKK][hapmap];0.92[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7078376	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082382	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089179	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7477130	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7893270	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7894145	0.96[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7897839	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7909191	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909581	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7913340	0.84[CEU][hapmap];0.93[GIH][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];1.00[ASN][1000 genomes]
rs7914859	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835250	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs860668	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9419746	1.00[ASN][1000 genomes]
rs9633695	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs973733	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980204	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2490733	EXOC6	cis	parietal	SCAN
rs2490733	CEP55	cis	cerebellum	SCAN
rs2490733	NOC3L	cis	parietal	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94592200-94605600	Weak transcription	Primary B cells from peripheral blood	blood
2	chr10:94596800-94604400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr10:94596800-94607800	Weak transcription	HSMMtube	muscle
4	chr10:94598600-94607200	Weak transcription	Primary T cells from cord blood	blood
5	chr10:94599200-94603000	Weak transcription	Placenta	Placenta
6	chr10:94599400-94607200	Weak transcription	Osteobl	bone
7	chr10:94599400-94607400	Weak transcription	Spleen	Spleen
8	chr10:94599600-94603000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr10:94599600-94604200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr10:94599600-94606600	Weak transcription	Lung	lung
11	chr10:94599600-94607600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr10:94600600-94607800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:94602200-94603200	Enhancers	HepG2	liver
14	chr10:94602200-94603400	Enhancers	Adipose Nuclei	Adipose
15	chr10:94602400-94603000	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr10:94602400-94603000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr10:94602400-94603400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr10:94602600-94603000	Enhancers	Hela-S3	cervix
19	chr10:94602600-94603200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr10:94602600-94603400	Enhancers	A549	lung
21	chr10:94602600-94603400	Enhancers	HUVEC	blood vessel
22	chr10:94602600-94603600	Enhancers	Fetal Muscle Leg	muscle
23	chr10:94602600-94605600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr10:94602600-94607600	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr10:94602800-94603000	Enhancers	Fetal Intestine Large	intestine
26	chr10:94602800-94603000	Enhancers	Fetal Lung	lung
27	chr10:94602800-94603000	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr10:94602800-94603200	Enhancers	Liver	Liver
29	chr10:94602800-94603200	Enhancers	Dnd41	blood
30	chr10:94602800-94603200	Enhancers	K562	blood
31	chr10:94602800-94604000	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr10:94602800-94605600	Enhancers	Primary hematopoietic stem cells	blood
33	chr10:94602800-94605600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:94602800-94607400	Enhancers	Primary monocytes fromperipheralblood	blood

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