Variant report

Variant	rs7777392
Chromosome Location	chr7:102908821-102908822
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10245155	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10257369	0.93[CEU][hapmap]
rs10266523	0.93[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs10486853	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs11978339	0.88[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs17136078	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[EUR][1000 genomes]
rs17136079	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[EUR][1000 genomes]
rs17136083	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs17136728	0.87[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs17606134	0.82[CHB][hapmap]
rs17680523	1.00[JPT][hapmap]
rs17837510	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs1861731	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs1968200	0.83[EUR][1000 genomes]
rs1968201	0.82[CHB][hapmap]
rs2193420	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs2878	0.93[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs3087615	1.00[JPT][hapmap]
rs3864441	0.80[EUR][1000 genomes]
rs4266582	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs4336542	0.85[EUR][1000 genomes]
rs4593456	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs4727563	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs4727566	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs4727568	0.87[CEU][hapmap]
rs4729886	0.85[EUR][1000 genomes]
rs4729887	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs4729888	0.85[EUR][1000 genomes]
rs4729889	0.85[EUR][1000 genomes]
rs4729890	0.85[EUR][1000 genomes]
rs4729891	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs4729896	1.00[CEU][hapmap]
rs4729899	1.00[CEU][hapmap]
rs4729902	1.00[CEU][hapmap]
rs5025411	0.82[CHB][hapmap]
rs56711496	0.83[EUR][1000 genomes]
rs57125388	0.87[EUR][1000 genomes]
rs58962103	0.86[EUR][1000 genomes]
rs61581136	0.87[EUR][1000 genomes]
rs61591042	0.83[EUR][1000 genomes]
rs62480085	0.82[EUR][1000 genomes]
rs62480090	0.83[EUR][1000 genomes]
rs62480132	0.85[EUR][1000 genomes]
rs62480133	0.85[EUR][1000 genomes]
rs62480134	0.85[EUR][1000 genomes]
rs62481564	0.87[EUR][1000 genomes]
rs62481612	0.84[EUR][1000 genomes]
rs62481613	0.89[EUR][1000 genomes]
rs62481614	0.83[EUR][1000 genomes]
rs62481615	0.85[EUR][1000 genomes]
rs62481648	0.93[EUR][1000 genomes]
rs62481653	0.86[EUR][1000 genomes]
rs62481654	0.91[EUR][1000 genomes]
rs62481655	1.00[EUR][1000 genomes]
rs62482370	1.00[ASN][1000 genomes]
rs62482371	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62482394	0.82[ASN][1000 genomes]
rs62482396	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62482397	0.82[ASN][1000 genomes]
rs62482398	0.82[ASN][1000 genomes]
rs62482399	0.82[ASN][1000 genomes]
rs62482403	0.82[ASN][1000 genomes]
rs62484781	0.83[EUR][1000 genomes]
rs62484782	0.83[EUR][1000 genomes]
rs6971734	0.93[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6972190	0.85[EUR][1000 genomes]
rs73175837	0.82[ASN][1000 genomes]
rs7455141	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs7804020	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868996	chr7:102332827-102991361	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv831084	chr7:102778908-102964970	Strong transcription Active TSS Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	esv1794417	chr7:102814101-102928545	Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv981567	chr7:102850992-102924834	Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7777392	RP11-401L13.5	cis	Thyroid	GTEx

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:102907400-102919400	Weak transcription	Fetal Brain Male	brain
2	chr7:102907800-102919600	Weak transcription	Fetal Thymus	thymus
3	chr7:102907800-102920000	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr7:102908000-102914200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr7:102908000-102915800	Weak transcription	Dnd41	blood
6	chr7:102908600-102911600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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