Variant report

Variant	rs17396080
Chromosome Location	chr8:66654703-66654704
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:66649066..66651698-chr8:66653132..66654772,2	K562	blood:
2	chr8:66627107..66628672-chr8:66653139..66655185,2	K562	blood:
3	chr8:66653039..66654856-chr8:66659634..66662671,3	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10106749	0.92[CEU][hapmap];0.84[GIH][hapmap];0.91[MEX][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes]
rs10111844	0.86[EUR][1000 genomes]
rs10957358	0.92[CEU][hapmap]
rs11995215	0.83[ASN][1000 genomes]
rs12114361	0.83[ASN][1000 genomes]
rs13251307	0.96[CEU][hapmap]
rs13274205	0.96[CEU][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13275168	0.96[CEU][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13280521	0.92[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.92[EUR][1000 genomes]
rs13281090	0.96[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs13281981	0.92[CEU][hapmap]
rs1355830	0.91[ASN][1000 genomes]
rs17395275	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs2357474	1.00[CHB][hapmap];0.85[JPT][hapmap];0.95[ASN][1000 genomes]
rs34496943	0.85[EUR][1000 genomes]
rs35411381	0.87[EUR][1000 genomes]
rs4424306	0.92[CEU][hapmap]
rs56784317	0.83[ASN][1000 genomes]
rs57517571	0.87[ASN][1000 genomes]
rs57688867	0.83[ASN][1000 genomes]
rs58213885	0.87[ASN][1000 genomes]
rs58760509	0.87[ASN][1000 genomes]
rs59322796	0.87[ASN][1000 genomes]
rs60213300	0.87[ASN][1000 genomes]
rs61464990	0.87[ASN][1000 genomes]
rs61575731	0.83[ASN][1000 genomes]
rs61736485	0.87[ASN][1000 genomes]
rs62507608	0.85[EUR][1000 genomes]
rs6472219	0.92[CEU][hapmap]
rs6984768	0.83[ASN][1000 genomes]
rs6987499	0.83[ASN][1000 genomes]
rs7005571	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs7007987	0.92[CEU][hapmap];0.86[GIH][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes]
rs73693418	0.87[ASN][1000 genomes]
rs73693420	0.87[ASN][1000 genomes]
rs7818909	0.92[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7821744	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs7822627	0.86[EUR][1000 genomes]
rs7822707	0.92[CEU][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7829434	0.92[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs7836663	0.83[ASN][1000 genomes]
rs7845030	0.91[ASN][1000 genomes]
rs869151	0.92[CEU][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs17396080	GALNT2	trans	parietal	SCAN
rs17396080	MTFR1	Cis_1M	lymphoblastoid	RTeQTL
rs17396080	PDE7A	cis	parietal	SCAN
rs17396080	CTD-3025N20.3	cis	Artery Tibial	GTEx

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:66621400-66673000	Weak transcription	Colon Smooth Muscle	Colon
2	chr8:66624600-66661200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr8:66625600-66661400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
4	chr8:66626200-66664600	Strong transcription	Fetal Thymus	thymus
5	chr8:66626400-66656600	Strong transcription	Primary T cells from cord blood	blood
6	chr8:66626600-66655600	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr8:66627200-66655000	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr8:66628200-66660000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr8:66628200-66660200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr8:66628400-66663800	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr8:66628400-66666600	Strong transcription	Dnd41	blood
12	chr8:66635200-66674000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr8:66635400-66673600	Weak transcription	Brain Substantia Nigra	brain
14	chr8:66635400-66673800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr8:66635400-66674000	Weak transcription	Fetal Brain Male	brain
16	chr8:66635600-66655000	Weak transcription	HSMMtube	muscle
17	chr8:66638800-66655600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr8:66641800-66655000	Strong transcription	GM12878-XiMat	blood
19	chr8:66641800-66660000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr8:66644000-66655000	Weak transcription	HepG2	liver
21	chr8:66645600-66686000	Weak transcription	HSMM	muscle
22	chr8:66646800-66655400	Weak transcription	Colonic Mucosa	Colon
23	chr8:66646800-66664400	Weak transcription	Osteobl	bone
24	chr8:66646800-66670200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr8:66647000-66654800	Weak transcription	HMEC	breast
26	chr8:66647000-66655600	Weak transcription	Esophagus	oesophagus
27	chr8:66647000-66658800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr8:66647200-66655400	Weak transcription	HUVEC	blood vessel
29	chr8:66647200-66657200	Weak transcription	NHDF-Ad	bronchial
30	chr8:66647400-66664600	Weak transcription	Brain Germinal Matrix	brain
31	chr8:66647600-66660600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr8:66647600-66662000	Weak transcription	Stomach Smooth Muscle	stomach
33	chr8:66647600-66670800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr8:66647600-66673400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr8:66647800-66655400	Weak transcription	Spleen	Spleen
36	chr8:66647800-66695200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr8:66648000-66655000	Weak transcription	Aorta	Aorta
38	chr8:66648000-66668000	Weak transcription	Liver	Liver
39	chr8:66648600-66668000	Weak transcription	Fetal Brain Female	brain
40	chr8:66649000-66668000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr8:66649000-66690200	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr8:66649600-66683800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr8:66650000-66671400	Weak transcription	Right Ventricle	heart
44	chr8:66651000-66671600	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr8:66651000-66673600	Weak transcription	Brain Hippocampus Middle	brain
46	chr8:66651000-66676600	Weak transcription	Fetal Lung	lung
47	chr8:66651200-66673600	Weak transcription	Placenta	Placenta
48	chr8:66651400-66673800	Weak transcription	NHLF	lung
49	chr8:66651600-66655200	Weak transcription	Duodenum Mucosa	Duodenum
50	chr8:66651600-66656800	Weak transcription	Fetal Muscle Leg	muscle

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