Variant report

Variant	rs11767488
Chromosome Location	chr7:97404380-97404381
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs11763921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12113519	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13230541	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13231214	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13232045	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13232142	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13238313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1397203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1397204	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1397205	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1510306	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17131823	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17169082	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17169102	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17169185	1.00[CEU][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes]
rs17169186	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17169191	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17344752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28505181	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34727943	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34815427	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34832720	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35190368	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35337801	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35378128	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35424999	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35500839	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35532973	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35700925	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35950761	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36076129	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36123498	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36198307	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36199127	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41278833	0.84[EUR][1000 genomes]
rs60876280	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67157089	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67877395	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6950092	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6952335	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6952362	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6960541	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6960981	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6966189	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967582	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967590	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6968035	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6968079	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6968319	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6968597	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71561640	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71563535	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71563539	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71563540	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7787070	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7795107	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap]
rs7800135	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7801604	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9690584	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888757	chr7:97003503-97461115	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1027086	chr7:97076283-97404597	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv888759	chr7:97283118-97422195	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv1031371	chr7:97312452-98070538	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	nsv508473	chr7:97385368-97407164	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1025306	chr7:97385561-97404911	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1025570	chr7:97385561-97405111	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1034752	chr7:97385561-97422926	Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv2764049	chr7:97385573-97407061	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv6	chr7:97385573-97423298	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv5858	chr7:97385573-97423298	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1021820	chr7:97385723-97404501	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1017392	chr7:97385921-97438035	Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv516307	chr7:97389030-97422926	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv436563	chr7:97392165-97420411	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1026522	chr7:97395448-97405579	Weak transcription Flanking Active TSS Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1030644	chr7:97395448-97407049	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1017302	chr7:97395448-97422926	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv607911	chr7:97399028-97404380	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv818541	chr7:97399624-97404380	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv607918	chr7:97400554-97404380	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv428178	chr7:97402756-97648029	Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers 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 miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11767488	LMO3	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:97403800-97406600	Weak transcription	Fetal Intestine Large	intestine

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