Variant report

Variant	rs56747025
Chromosome Location	chr10:97520830-97520831
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11188367	0.80[EUR][1000 genomes]
rs11188378	0.80[EUR][1000 genomes]
rs11188382	0.81[EUR][1000 genomes]
rs11188383	0.81[EUR][1000 genomes]
rs11188388	0.81[EUR][1000 genomes]
rs11188405	0.81[EUR][1000 genomes]
rs11188410	0.81[EUR][1000 genomes]
rs11188412	0.83[EUR][1000 genomes]
rs11188413	0.83[EUR][1000 genomes]
rs11188415	0.83[EUR][1000 genomes]
rs11188419	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188424	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11188431	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188448	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11188450	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11188451	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11188461	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11188466	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188467	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188469	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188475	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188479	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188481	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188491	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11188502	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11188508	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11553577	0.85[EUR][1000 genomes]
rs12354465	0.80[EUR][1000 genomes]
rs12355114	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12357211	0.85[EUR][1000 genomes]
rs12357513	0.80[EUR][1000 genomes]
rs12358517	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2275760	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3176882	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3181121	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3818833	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs41291576	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4420188	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58059905	0.83[EUR][1000 genomes]
rs58169787	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60144080	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61587319	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs61731067	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61736814	0.80[EUR][1000 genomes]
rs7070507	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7090630	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7093453	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7100644	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73315224	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73329287	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73331134	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73333021	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97516600-97521400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:97516800-97521200	Weak transcription	Left Ventricle	heart
3	chr10:97516800-97524800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:97517200-97521200	Weak transcription	Primary T cells from cord blood	blood
5	chr10:97517200-97521400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr10:97517600-97523000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr10:97517600-97523600	Enhancers	Primary B cells from peripheral blood	blood
8	chr10:97518400-97521200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr10:97518600-97521200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:97518600-97521200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr10:97518600-97521200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr10:97518600-97534000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr10:97518800-97521200	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr10:97518800-97521400	Enhancers	Primary B cells from cord blood	blood
15	chr10:97518800-97521400	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr10:97518800-97534000	Weak transcription	Fetal Stomach	stomach
17	chr10:97519200-97521200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr10:97519200-97521400	Weak transcription	Lung	lung
19	chr10:97519200-97521400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr10:97519200-97521600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr10:97519400-97521200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:97519400-97521200	Weak transcription	Aorta	Aorta
23	chr10:97519400-97521200	Weak transcription	Brain Substantia Nigra	brain
24	chr10:97519400-97521200	Weak transcription	Spleen	Spleen
25	chr10:97519400-97522600	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
26	chr10:97519600-97521400	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr10:97519800-97521000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:97519800-97521000	Weak transcription	HUVEC	blood vessel
29	chr10:97519800-97521200	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr10:97519800-97521400	Weak transcription	Colon Smooth Muscle	Colon
31	chr10:97519800-97521400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr10:97520000-97521200	Weak transcription	Primary hematopoietic stem cells	blood
33	chr10:97520000-97527600	Weak transcription	Small Intestine	intestine
34	chr10:97520200-97521200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr10:97520800-97521800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
36	chr10:97520800-97521800	Enhancers	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links