Variant report

Variant	rs6583942
Chromosome Location	chr10:96239719-96239720
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:96234155..96237347-chr10:96237389..96239974,3	K562	blood:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10786168	1.00[JPT][hapmap]
rs10786169	0.84[JPT][hapmap]
rs10882460	1.00[JPT][hapmap]
rs10882463	1.00[JPT][hapmap]
rs10882474	1.00[JPT][hapmap]
rs10882475	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10882477	1.00[JPT][hapmap]
rs11187930	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11187939	1.00[JPT][hapmap]
rs11187940	0.95[CEU][hapmap];0.93[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11187944	1.00[JPT][hapmap]
rs11187952	1.00[JPT][hapmap]
rs11187960	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188009	1.00[JPT][hapmap]
rs11188012	0.84[JPT][hapmap]
rs11188019	0.83[JPT][hapmap]
rs11188020	0.95[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11188036	0.80[EUR][1000 genomes]
rs11638	0.83[JPT][hapmap]
rs12221475	1.00[JPT][hapmap]
rs1326839	0.94[JPT][hapmap]
rs1334595	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1931757	1.00[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1977288	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1977291	0.96[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1980741	0.84[JPT][hapmap]
rs2031323	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2265366	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2281791	1.00[JPT][hapmap]
rs2764378	0.85[AMR][1000 genomes]
rs3740358	1.00[JPT][hapmap]
rs3781262	1.00[JPT][hapmap]
rs4351744	0.83[JPT][hapmap]
rs4564258	0.82[EUR][1000 genomes]
rs480032	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4918402	1.00[JPT][hapmap]
rs517784	1.00[JPT][hapmap]
rs556055	1.00[JPT][hapmap]
rs6583941	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6583947	0.80[ASN][1000 genomes]
rs692872	1.00[JPT][hapmap]
rs701885	1.00[JPT][hapmap]
rs7075182	0.88[CEU][hapmap];0.89[JPT][hapmap]
rs7078478	1.00[CEU][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs7078811	0.83[JPT][hapmap]
rs7083898	0.84[JPT][hapmap]
rs7087798	0.96[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7088008	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7092129	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs7096007	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7393240	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7900007	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7906843	0.82[JPT][hapmap]
rs7913343	1.00[JPT][hapmap]
rs7921721	0.83[JPT][hapmap]
rs7922956	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9633675	0.80[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	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1053747	chr10:96211618-96366396	Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96203400-96242800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:96204200-96243400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:96210200-96248800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr10:96211600-96292200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:96212600-96248600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr10:96215600-96255200	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr10:96216600-96243600	Weak transcription	Brain Anterior Caudate	brain
8	chr10:96219800-96242800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr10:96219800-96283400	Weak transcription	Lung	lung
10	chr10:96220000-96248800	Weak transcription	Colonic Mucosa	Colon
11	chr10:96221800-96255600	Weak transcription	Ovary	ovary
12	chr10:96222800-96255800	Weak transcription	HepG2	liver
13	chr10:96223200-96293600	Weak transcription	NHDF-Ad	bronchial
14	chr10:96223400-96240200	Weak transcription	Brain Hippocampus Middle	brain
15	chr10:96223600-96242600	Weak transcription	Fetal Muscle Leg	muscle
16	chr10:96227800-96255600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr10:96228000-96243200	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:96228600-96242200	Weak transcription	Brain Germinal Matrix	brain
19	chr10:96228600-96242400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr10:96230000-96243000	Weak transcription	Brain Substantia Nigra	brain
21	chr10:96230200-96242000	Weak transcription	Brain Cingulate Gyrus	brain
22	chr10:96230400-96244000	Weak transcription	Pancreas	Pancrea
23	chr10:96233600-96239800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr10:96234000-96243600	Weak transcription	Fetal Muscle Trunk	muscle
25	chr10:96235000-96255200	Weak transcription	Osteobl	bone
26	chr10:96235600-96243400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:96236000-96248600	Weak transcription	Left Ventricle	heart
28	chr10:96236000-96254400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr10:96236400-96268600	Weak transcription	HSMMtube	muscle
30	chr10:96236800-96241000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr10:96237000-96244000	Weak transcription	Aorta	Aorta
32	chr10:96237200-96243600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr10:96237400-96248800	Weak transcription	Brain Angular Gyrus	brain
34	chr10:96237600-96239800	Weak transcription	Small Intestine	intestine
35	chr10:96237600-96258800	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr10:96237600-96271400	Weak transcription	Placenta	Placenta
37	chr10:96237800-96241000	Weak transcription	Fetal Lung	lung
38	chr10:96238000-96240600	Weak transcription	Adipose Nuclei	Adipose
39	chr10:96238000-96241000	Weak transcription	Fetal Intestine Large	intestine
40	chr10:96238000-96243400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr10:96238200-96241000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:96238200-96242800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr10:96238200-96243000	Weak transcription	HSMM	muscle
44	chr10:96238200-96243400	Weak transcription	Fetal Brain Female	brain
45	chr10:96238200-96244000	Weak transcription	Fetal Intestine Small	intestine
46	chr10:96238200-96258400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr10:96238200-96273400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr10:96238400-96244000	Weak transcription	Fetal Stomach	stomach
49	chr10:96239000-96242400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr10:96239600-96240200	Strong transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links