Variant report

Variant	rs7563345
Chromosome Location	chr2:234143244-234143245
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11685932	0.85[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12692250	0.80[EUR][1000 genomes]
rs13005285	0.83[TSI][hapmap]
rs1596016	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2119504	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2241876	0.83[CHD][hapmap]
rs2289475	0.82[ASN][1000 genomes]
rs35812841	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6431659	0.85[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap];0.98[TSI][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6737398	0.85[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6754677	0.82[CHB][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs930449	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7563345	ATG16L1	cis	cerebellum	SCAN
rs7563345	ECEL1P2	cis	parietal	SCAN
rs7563345	SCARNA5	cis	parietal	SCAN
rs7563345	SCARNA5	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234138000-234151200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
2	chr2:234138400-234151200	Enhancers	Primary T cells fromperipheralblood	blood
3	chr2:234140000-234148400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr2:234141200-234144800	Weak transcription	K562	blood
5	chr2:234141800-234143400	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr2:234142000-234144200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr2:234142200-234143400	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr2:234142200-234143800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr2:234142200-234143800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr2:234142200-234144000	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr2:234142400-234143400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr2:234142400-234143600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr2:234142400-234143800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr2:234142600-234143400	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr2:234142600-234143800	Enhancers	GM12878-XiMat	blood
16	chr2:234142800-234143600	Weak transcription	Fetal Thymus	thymus
17	chr2:234143000-234143600	Enhancers	Primary T cells from cord blood	blood
18	chr2:234143200-234145600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr2:234143200-234146000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr2:234143200-234148400	Weak transcription	Monocytes-CD14+_RO01746	blood

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