Variant report

Variant	rs7623666
Chromosome Location	chr3:61239571-61239572
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RUNX3	chr3:61239366-61239882	GM12878	blood:	n/a	n/a
2	NFYB	chr3:61239395-61239596	GM12878	blood:	n/a	n/a
3	EP300	chr3:61239528-61239756	GM12878	blood:	n/a	n/a
4	RUNX3	chr3:61239432-61239817	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:61238895..61241316-chr3:61241828..61243785,2	K562	blood:

Variant related genes	Relation type
FHIT	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11915333	0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs11918601	1.00[EUR][1000 genomes]
rs11921624	1.00[EUR][1000 genomes]
rs11923043	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17064511	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs3921997	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58763528	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59745831	1.00[EUR][1000 genomes]
rs60366187	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61215023	1.00[EUR][1000 genomes]
rs72877847	1.00[EUR][1000 genomes]
rs72877848	1.00[EUR][1000 genomes]
rs72877853	1.00[EUR][1000 genomes]
rs72877855	1.00[EUR][1000 genomes]
rs72877857	1.00[EUR][1000 genomes]
rs72877859	1.00[EUR][1000 genomes]
rs72877864	1.00[EUR][1000 genomes]
rs72877876	1.00[EUR][1000 genomes]
rs72877894	1.00[EUR][1000 genomes]
rs72879804	1.00[EUR][1000 genomes]
rs72879816	1.00[EUR][1000 genomes]
rs72879862	1.00[EUR][1000 genomes]
rs72879870	1.00[EUR][1000 genomes]
rs72879875	1.00[EUR][1000 genomes]
rs72879891	1.00[EUR][1000 genomes]
rs72881709	1.00[EUR][1000 genomes]
rs72881734	1.00[EUR][1000 genomes]
rs72881802	1.00[EUR][1000 genomes]
rs7629722	1.00[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv876868	chr3:61145050-61282503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv532626	chr3:61159646-61388418	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1008399	chr3:61176965-61461349	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61237800-61239600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:61238000-61240000	Enhancers	GM12878-XiMat	blood
3	chr3:61238000-61240200	Weak transcription	Fetal Brain Male	brain
4	chr3:61238000-61242400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:61238200-61239600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:61238200-61239600	Enhancers	Fetal Thymus	thymus
7	chr3:61238200-61242400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:61238200-61242400	Weak transcription	Brain Substantia Nigra	brain
9	chr3:61238400-61239600	Enhancers	Thymus	Thymus

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