Variant report

Variant	rs9373393
Chromosome Location	chr6:143799393-143799394
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143797881..143799446-chr6:143831391..143833024,2	K562	blood:
2	chr6:143796239..143798571-chr6:143798863..143800734,2	K562	blood:
3	chr6:143797592..143800236-chr6:143831104..143832849,2	MCF-7	breast:
4	chr6:143798512..143801436-chr6:143803497..143806916,3	K562	blood:

Variant related genes	Relation type
ENSG00000229036	Chromatin interaction
ENSG00000034693	Chromatin interaction
ENSG00000001036	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1061220	0.82[CHD][hapmap]
rs1065355	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs10782288	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10782289	0.90[EUR][1000 genomes]
rs10809	0.88[CEU][hapmap];0.81[TSI][hapmap];0.83[EUR][1000 genomes]
rs12196227	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs12199192	0.92[EUR][1000 genomes]
rs1338533	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1424922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1978529	0.89[EUR][1000 genomes]
rs2143137	0.94[CEU][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs2272924	0.89[CEU][hapmap];0.88[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2294505	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2294506	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs3088203	0.82[CHD][hapmap]
rs3761999	0.81[JPT][hapmap]
rs3762000	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3762001	0.94[CEU][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs3762002	0.94[CEU][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs3789790	0.94[CEU][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs3789791	0.88[EUR][1000 genomes]
rs3804538	1.00[CEU][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs3804539	1.00[CEU][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs3804544	0.89[CEU][hapmap];0.81[JPT][hapmap];0.84[EUR][1000 genomes]
rs4895612	0.82[CHD][hapmap];0.81[JPT][hapmap]
rs4895614	0.82[CHD][hapmap];0.81[JPT][hapmap]
rs4895615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896656	0.82[CHD][hapmap];0.81[JPT][hapmap]
rs4896659	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896660	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924268	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6926733	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6929191	0.82[CHD][hapmap];0.81[JPT][hapmap]
rs6930325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6935346	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6935618	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7741976	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7751011	0.85[EUR][1000 genomes]
rs9321913	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs9321914	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373391	0.81[JPT][hapmap]
rs9376750	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs9376753	0.94[CEU][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs9390092	0.82[CHD][hapmap];0.81[JPT][hapmap]
rs9390094	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs9390096	0.94[CEU][hapmap]
rs9399442	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9399443	0.90[EUR][1000 genomes]
rs9403492	0.83[EUR][1000 genomes]
rs9403494	1.00[CEU][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs9403496	1.00[CEU][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9373393	FUCA2	cis	parietal	SCAN
rs9373393	HIVEP2	cis	parietal	SCAN
rs9373393	PEX3	Cis_1M	lymphoblastoid	RTeQTL
rs9373393	RAB32	cis	parietal	SCAN

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143772600-143811600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:143772600-143832000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:143772800-143815000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:143772800-143821200	Weak transcription	Psoas Muscle	Psoas
5	chr6:143773000-143801400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:143773000-143811600	Weak transcription	Right Ventricle	heart
7	chr6:143773000-143814600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:143773000-143814800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:143773000-143815000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:143773000-143815000	Weak transcription	Colonic Mucosa	Colon
11	chr6:143773200-143827000	Weak transcription	Brain Germinal Matrix	brain
12	chr6:143773400-143814200	Weak transcription	K562	blood
13	chr6:143773400-143814600	Weak transcription	HUVEC	blood vessel
14	chr6:143773400-143814800	Weak transcription	Hela-S3	cervix
15	chr6:143773400-143815000	Weak transcription	A549	lung
16	chr6:143773400-143818200	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:143773400-143832000	Weak transcription	Fetal Brain Male	brain
18	chr6:143774400-143819400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:143779000-143818200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:143779200-143816800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr6:143779400-143804600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:143781000-143832000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:143781200-143800200	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr6:143783000-143814600	Weak transcription	Fetal Intestine Small	intestine
25	chr6:143783200-143818400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:143784600-143814800	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr6:143784800-143814800	Weak transcription	NHLF	lung
28	chr6:143790200-143811600	Weak transcription	Pancreas	Pancrea
29	chr6:143790200-143811600	Weak transcription	Spleen	Spleen
30	chr6:143790200-143814800	Weak transcription	Small Intestine	intestine
31	chr6:143790200-143831600	Weak transcription	Esophagus	oesophagus
32	chr6:143790200-143831600	Weak transcription	Gastric	stomach
33	chr6:143791000-143801000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:143791000-143802200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr6:143791400-143799800	Strong transcription	Primary B cells from peripheral blood	blood
36	chr6:143791400-143800600	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr6:143791400-143800600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr6:143791400-143802200	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:143791400-143802800	Strong transcription	Liver	Liver
40	chr6:143791600-143803400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:143791600-143811800	Weak transcription	Thymus	Thymus
42	chr6:143791800-143807000	Weak transcription	Ovary	ovary
43	chr6:143791800-143811600	Weak transcription	Lung	lung
44	chr6:143792600-143802200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:143792800-143799400	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr6:143792800-143799400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr6:143792800-143801200	Strong transcription	Dnd41	blood
48	chr6:143792800-143814800	Weak transcription	NHDF-Ad	bronchial
49	chr6:143793000-143799600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:143793000-143801800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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