Variant report

Variant	rs10007919
Chromosome Location	chr4:76951854-76951855
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:76951051..76953241-chr4:76957687..76959278,2	K562	blood:
2	chr4:76950183..76953178-chr4:76959334..76961500,2	K562	blood:

Variant related genes	Relation type
ENSG00000225846	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 16 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10002977	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10021434	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10029157	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10031733	0.82[CEU][hapmap];0.81[CHB][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10031983	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]
rs10518143	0.94[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12374321	0.82[CEU][hapmap];0.84[GIH][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap]
rs12649185	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12651402	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13111494	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs13118503	0.88[CEU][hapmap];0.87[GIH][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap]
rs13121161	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13129896	0.81[AMR][1000 genomes]
rs13130917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1394916	1.00[YRI][hapmap]
rs17001247	0.82[CEU][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes]
rs1857821	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs2242470	0.88[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap]
rs2271528	0.88[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs2276886	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];0.84[JPT][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28655366	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2869462	0.94[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28818603	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28897072	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34740469	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3733238	0.82[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3796484	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs4241577	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4429750	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4508917	0.84[EUR][1000 genomes]
rs4859567	0.82[CEU][hapmap];0.90[MEX][hapmap]
rs4859571	0.82[CEU][hapmap];0.84[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap]
rs4859572	0.81[CHB][hapmap];0.85[MEX][hapmap];0.85[TSI][hapmap]
rs4859577	0.82[EUR][1000 genomes]
rs4859578	0.93[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs4859580	0.89[CEU][hapmap];0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs4859609	0.95[CHB][hapmap];0.94[GIH][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.81[EUR][1000 genomes]
rs6841333	0.82[EUR][1000 genomes]
rs6847815	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7688312	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs884004	0.94[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.94[GIH][hapmap];0.84[JPT][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9994667	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][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]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3353539	chr4:76530136-76993859	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv529613	chr4:76654941-77081576	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1004627	chr4:76793910-76999584	Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	esv19222	chr4:76948569-76977780	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv1821339	chr4:76948817-76955927	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv1802071	chr4:76948817-76972594	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv1799589	chr4:76951550-76954240	Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:16)

SNP	Gene	Cis/trans	Tissue	Source
rs10007919	CXCL10	cis	multi-tissue	Pritchard
rs10007919	RCHY1	cis	cerebellum	SCAN
rs10007919	NAAA	cis	parietal	SCAN
rs10007919	NAAA	cis	Esophagus Muscularis	GTEx
rs10007919	NAAA	cis	lymphoblastoid	seeQTL
rs10007919	NAAA	cis	Esophagus Mucosa	GTEx
rs10007919	NAAA	cis	cerebellum	SCAN
rs10007919	ASAHL	cis	multi-tissue	Pritchard
rs10007919	CXCL11	cis	multi-tissue	Pritchard
rs10007919	NAAA	cis	Muscle Skeletal	GTEx
rs10007919	CXCL10	cis	lymphoblastoid	seeQTL
rs10007919	FAM47E	cis	cerebellum	SCAN
rs10007919	NAAA	cis	Skin Sun Exposed Lower leg	GTEx
rs10007919	NAAA	cis	Artery Aorta	GTEx
rs10007919	ASAHL	Cis_1M	lymphoblastoid	RTeQTL
rs10007919	CXCL10	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:76950200-76957000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr4:76950800-76956200	Weak transcription	Monocytes-CD14+_RO01746	blood

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