Variant report

Variant	rs10508874
Chromosome Location	chr10:44400997-44400998
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10751347	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10751348	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10793506	0.84[EUR][1000 genomes]
rs10899948	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1147900	0.90[ASN][1000 genomes]
rs1147902	0.90[ASN][1000 genomes]
rs1254744	0.90[ASN][1000 genomes]
rs1254855	0.90[ASN][1000 genomes]
rs1254857	0.90[ASN][1000 genomes]
rs1254858	0.90[ASN][1000 genomes]
rs1254859	0.90[ASN][1000 genomes]
rs1303233	1.00[ASN][1000 genomes]
rs1325487	0.90[ASN][1000 genomes]
rs1570847	1.00[ASN][1000 genomes]
rs1749799	0.89[ASN][1000 genomes]
rs1813245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1813897	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2147875	0.91[ASN][1000 genomes]
rs2147876	0.91[ASN][1000 genomes]
rs2169198	1.00[ASN][1000 genomes]
rs2274241	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2798993	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs4948787	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4948789	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7090750	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7899385	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7900414	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7915088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs882902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs883400	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs898548	0.99[ASN][1000 genomes]
rs898550	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs912803	0.90[ASN][1000 genomes]
rs9732790	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs984000	0.89[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051921	chr10:44378011-44458880	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10508874	GPRIN2	cis	parietal	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44392400-44402000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:44395000-44406200	Weak transcription	Esophagus	oesophagus
3	chr10:44395800-44401400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr10:44396400-44401200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:44397800-44401000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:44398800-44402600	Enhancers	Fetal Muscle Leg	muscle
7	chr10:44399200-44403400	Enhancers	Ovary	ovary
8	chr10:44399400-44402400	Enhancers	Fetal Muscle Trunk	muscle
9	chr10:44399400-44402600	Enhancers	Fetal Stomach	stomach
10	chr10:44399800-44401600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr10:44399800-44402200	Enhancers	Rectal Smooth Muscle	rectum
12	chr10:44399800-44402400	Enhancers	Right Atrium	heart
13	chr10:44399800-44402600	Enhancers	Adipose Nuclei	Adipose
14	chr10:44400000-44402200	Enhancers	Fetal Heart	heart
15	chr10:44400000-44402400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr10:44400000-44402400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
17	chr10:44400000-44402400	Enhancers	Left Ventricle	heart
18	chr10:44400000-44402400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr10:44400200-44401400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr10:44400200-44402400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr10:44400200-44402400	Enhancers	HSMMtube	muscle
22	chr10:44400200-44402600	Enhancers	Fetal Kidney	kidney
23	chr10:44400400-44401200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr10:44400400-44401400	Weak transcription	Colon Smooth Muscle	Colon
25	chr10:44400400-44401800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:44400400-44402200	Enhancers	HSMM	muscle
27	chr10:44400400-44402200	Enhancers	NHDF-Ad	bronchial
28	chr10:44400400-44402400	Enhancers	Muscle Satellite Cultured Cells	--
29	chr10:44400400-44402400	Enhancers	Stomach Smooth Muscle	stomach
30	chr10:44400400-44406400	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:44400600-44401600	Enhancers	NHLF	lung
32	chr10:44400600-44401800	Weak transcription	Right Ventricle	heart
33	chr10:44400600-44402000	Weak transcription	Lung	lung
34	chr10:44400600-44402000	Enhancers	Spleen	Spleen
35	chr10:44400800-44401000	Flanking Active TSS	Fetal Lung	lung
36	chr10:44400800-44401200	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr10:44400800-44401600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr10:44400800-44402200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:44400800-44402400	Enhancers	Osteobl	bone

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