Variant report

Variant	rs57949777
Chromosome Location	chr10:90139649-90139650
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11202731	0.84[ASN][1000 genomes]
rs11202734	0.87[ASN][1000 genomes]
rs12217988	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12219831	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12220632	0.81[ASN][1000 genomes]
rs1582223	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1582224	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1613409	0.87[ASN][1000 genomes]
rs1648512	0.84[ASN][1000 genomes]
rs1648523	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1774970	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1774971	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3740279	0.82[ASN][1000 genomes]
rs59184458	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59482232	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59513062	0.83[ASN][1000 genomes]
rs61260851	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073755	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7075138	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7097606	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74149704	0.81[ASN][1000 genomes]
rs74149712	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74149714	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs74149715	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs792224	0.91[ASN][1000 genomes]
rs792225	0.84[ASN][1000 genomes]
rs792227	0.82[ASN][1000 genomes]
rs792228	0.85[ASN][1000 genomes]
rs792229	0.93[ASN][1000 genomes]
rs792232	0.96[AFR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90135800-90144800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr10:90136000-90140400	Weak transcription	Primary B cells from cord blood	blood
3	chr10:90139000-90139800	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr10:90139200-90139800	Enhancers	Duodenum Mucosa	Duodenum
5	chr10:90139200-90139800	Enhancers	Rectal Mucosa Donor 29	rectum
6	chr10:90139200-90139800	Enhancers	NHDF-Ad	bronchial
7	chr10:90139200-90140000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:90139200-90140000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:90139200-90140000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:90139200-90140000	Enhancers	Muscle Satellite Cultured Cells	--
11	chr10:90139200-90140000	Enhancers	Fetal Intestine Small	intestine
12	chr10:90139200-90140000	Enhancers	A549	lung
13	chr10:90139200-90140200	Enhancers	Dnd41	blood
14	chr10:90139400-90139800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr10:90139400-90139800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:90139400-90139800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:90139400-90139800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:90139400-90139800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr10:90139400-90139800	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr10:90139400-90139800	Enhancers	Small Intestine	intestine
21	chr10:90139400-90139800	Enhancers	NH-A	brain
22	chr10:90139400-90139800	Enhancers	NHLF	lung
23	chr10:90139400-90140000	Enhancers	GM12878-XiMat	blood
24	chr10:90139400-90140000	Enhancers	HMEC	breast
25	chr10:90139400-90140000	Enhancers	Osteobl	bone
26	chr10:90139600-90139800	Enhancers	Fetal Thymus	thymus
27	chr10:90139600-90139800	Enhancers	Thymus	Thymus
28	chr10:90139600-90140000	Enhancers	Fetal Intestine Large	intestine

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