Variant report

Variant	rs56020662
Chromosome Location	chr10:96222841-96222842
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1079504	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882454	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10882460	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882463	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882469	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10882470	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10882471	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10882473	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11187937	0.83[EUR][1000 genomes]
rs11187939	0.83[EUR][1000 genomes]
rs11187944	0.83[EUR][1000 genomes]
rs11187948	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11187952	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11187958	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11187966	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187972	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11187973	0.87[EUR][1000 genomes]
rs11187980	0.85[EUR][1000 genomes]
rs11187985	0.83[AMR][1000 genomes]
rs11187998	0.83[AFR][1000 genomes]
rs11188005	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11188015	0.82[EUR][1000 genomes]
rs11188016	0.81[EUR][1000 genomes]
rs11188017	0.83[EUR][1000 genomes]
rs11188026	0.83[EUR][1000 genomes]
rs11188030	0.82[EUR][1000 genomes]
rs11527881	0.86[EUR][1000 genomes]
rs11592354	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12218213	0.81[EUR][1000 genomes]
rs12218216	0.81[EUR][1000 genomes]
rs12219906	0.84[EUR][1000 genomes]
rs12220588	0.81[EUR][1000 genomes]
rs12221475	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12572040	0.80[EUR][1000 genomes]
rs12573638	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12762574	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1749352	0.82[EUR][1000 genomes]
rs1749355	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1749356	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1886272	0.82[AMR][1000 genomes]
rs1889485	0.86[EUR][1000 genomes]
rs1889486	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1889487	0.83[EUR][1000 genomes]
rs1969815	0.81[EUR][1000 genomes]
rs1977290	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1980741	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2012670	0.80[EUR][1000 genomes]
rs2095380	0.85[EUR][1000 genomes]
rs2244241	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2265362	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2265364	0.83[EUR][1000 genomes]
rs2860760	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2860821	0.83[EUR][1000 genomes]
rs2901764	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2901765	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34814196	0.84[EUR][1000 genomes]
rs35774063	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4316436	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4351744	0.85[EUR][1000 genomes]
rs4421688	0.82[EUR][1000 genomes]
rs4611135	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs479664	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4917505	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4918333	0.85[EUR][1000 genomes]
rs4918401	0.82[EUR][1000 genomes]
rs4918403	0.84[EUR][1000 genomes]
rs4918409	0.80[EUR][1000 genomes]
rs4918411	0.81[EUR][1000 genomes]
rs493088	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs517784	0.83[EUR][1000 genomes]
rs522111	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs541704	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs542540	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs556055	0.83[EUR][1000 genomes]
rs576517	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs581165	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6583943	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6583944	0.83[EUR][1000 genomes]
rs6583945	0.83[EUR][1000 genomes]
rs692872	0.82[EUR][1000 genomes]
rs7068337	0.80[EUR][1000 genomes]
rs7073639	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7078236	0.85[EUR][1000 genomes]
rs7083898	0.85[EUR][1000 genomes]
rs7086462	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7087472	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7089094	0.82[EUR][1000 genomes]
rs7393251	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7898330	0.80[EUR][1000 genomes]
rs7913343	0.83[EUR][1000 genomes]
rs7921721	0.85[EUR][1000 genomes]
rs912466	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9420641	0.82[EUR][1000 genomes]
rs945123	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs955694	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9633699	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96190800-96234600	Weak transcription	Osteobl	bone
2	chr10:96203000-96239600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr10:96203400-96242800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr10:96204200-96243400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr10:96210200-96248800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr10:96211600-96224000	Weak transcription	Psoas Muscle	Psoas
7	chr10:96211600-96292200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:96212600-96248600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr10:96213000-96234400	Weak transcription	HSMM	muscle
10	chr10:96215600-96255200	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr10:96216600-96223400	Weak transcription	Right Ventricle	heart
12	chr10:96216600-96243600	Weak transcription	Brain Anterior Caudate	brain
13	chr10:96218800-96223000	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr10:96218800-96235000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr10:96219800-96235200	Weak transcription	Left Ventricle	heart
16	chr10:96219800-96239600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr10:96219800-96242800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr10:96219800-96283400	Weak transcription	Lung	lung
19	chr10:96220000-96223000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr10:96220000-96223000	Weak transcription	Fetal Intestine Small	intestine
21	chr10:96220000-96223000	Weak transcription	Fetal Stomach	stomach
22	chr10:96220000-96227400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr10:96220000-96248800	Weak transcription	Colonic Mucosa	Colon
24	chr10:96220600-96234200	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr10:96221800-96238000	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr10:96221800-96255600	Weak transcription	Ovary	ovary
27	chr10:96222200-96237200	Weak transcription	Liver	Liver
28	chr10:96222600-96223000	Weak transcription	Brain Hippocampus Middle	brain
29	chr10:96222800-96223600	ZNF genes & repeats	Fetal Lung	lung
30	chr10:96222800-96255800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links