Variant report

Variant	rs12268277
Chromosome Location	chr10:3857337-3857338
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:3856210..3857914-chr10:3861188..3862923,2	K562	blood:
2	chr10:3822110..3831216-chr10:3843525..3857606,41	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10508268	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11252113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12245875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12248147	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12761012	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34180227	0.89[EUR][1000 genomes]
rs34414469	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61829733	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61829734	0.86[AMR][1000 genomes];0.98[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	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv540450	chr10:3804336-3859639	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv540451	chr10:3804336-3868002	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv540456	chr10:3820854-3868002	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	n/a
5	nsv1045571	chr10:3839308-3874184	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
6	nsv540458	chr10:3839308-3874184	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:3854000-3857400	Weak transcription	Thymus	Thymus
2	chr10:3854400-3859000	Weak transcription	K562	blood
3	chr10:3854400-3861800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr10:3854600-3858800	Enhancers	Dnd41	blood
5	chr10:3854600-3859200	Weak transcription	Left Ventricle	heart
6	chr10:3854600-3862000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:3854600-3867800	Weak transcription	NHLF	lung
8	chr10:3854800-3857400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr10:3855000-3857400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr10:3855800-3857600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr10:3856200-3867400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:3856400-3857800	Enhancers	Primary T cells fromperipheralblood	blood
13	chr10:3856400-3858400	Enhancers	Fetal Thymus	thymus
14	chr10:3856600-3857600	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr10:3856600-3862200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr10:3856800-3857800	Weak transcription	Fetal Heart	heart
17	chr10:3856800-3858000	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr10:3856800-3859200	Weak transcription	HepG2	liver
19	chr10:3856800-3862200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr10:3856800-3862400	Weak transcription	HSMMtube	muscle
21	chr10:3856800-3862400	Weak transcription	Osteobl	bone
22	chr10:3857200-3857600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr10:3857200-3858000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr10:3857200-3859000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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