Variant report

Variant	rs10857564
Chromosome Location	chr10:49612572-49612573
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	chr10:49605353..49609385-chr10:49612341..49615386,5	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10745265	1.00[JPT][hapmap]
rs10776592	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10776593	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10776594	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10857561	0.81[ASN][1000 genomes]
rs10857563	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10857565	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11101285	1.00[JPT][hapmap]
rs11101326	0.84[CEU][hapmap]
rs1112268	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11597435	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11598320	1.00[CEU][hapmap];0.80[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12358297	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17780725	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1881735	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1881737	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1881738	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1881740	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1881741	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1919706	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1919707	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1919709	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1997365	1.00[JPT][hapmap]
rs2141516	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2178339	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2377140	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2377141	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2377143	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs2377349	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2440861	0.81[ASN][1000 genomes]
rs2463959	0.80[CHB][hapmap];0.80[ASN][1000 genomes]
rs2590382	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2590383	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2590384	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2590385	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2590386	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2590391	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2698758	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2698762	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2698768	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2889595	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3813864	0.89[CHB][hapmap]
rs4012930	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4838404	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs4838405	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4838588	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56078229	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6537559	1.00[JPT][hapmap]
rs7068398	1.00[CEU][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7084326	0.87[EUR][1000 genomes]
rs7097975	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs7898026	0.94[JPT][hapmap]
rs9919504	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1039508	chr10:49595718-49654403	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49595000-49616000	Weak transcription	Primary B cells from cord blood	blood
2	chr10:49598600-49619800	Weak transcription	Fetal Intestine Small	intestine
3	chr10:49598800-49612800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr10:49599200-49622200	Weak transcription	HepG2	liver
5	chr10:49599800-49618000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr10:49600000-49613400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr10:49600000-49613600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr10:49600000-49618600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr10:49600200-49617400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr10:49600200-49618200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr10:49600400-49616800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr10:49600400-49620200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:49601200-49613800	Weak transcription	Primary T cells from cord blood	blood
14	chr10:49605200-49618000	Weak transcription	Fetal Muscle Leg	muscle
15	chr10:49606800-49619800	Weak transcription	Fetal Stomach	stomach
16	chr10:49607600-49613800	Weak transcription	Placenta	Placenta
17	chr10:49607600-49614200	Weak transcription	Right Atrium	heart
18	chr10:49607600-49616600	Weak transcription	Fetal Thymus	thymus
19	chr10:49607600-49616800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr10:49607600-49618000	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:49607600-49619400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr10:49607600-49619600	Weak transcription	Colonic Mucosa	Colon
23	chr10:49607600-49619600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr10:49607600-49624200	Weak transcription	Gastric	stomach
25	chr10:49607600-49624200	Weak transcription	Lung	lung
26	chr10:49607600-49647800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr10:49607600-49652400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:49607800-49614200	Weak transcription	Fetal Heart	heart
29	chr10:49607800-49614200	Weak transcription	Psoas Muscle	Psoas
30	chr10:49607800-49616800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:49607800-49620400	Weak transcription	Stomach Mucosa	stomach
32	chr10:49608000-49614200	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr10:49608000-49614400	Weak transcription	Ovary	ovary
34	chr10:49608000-49645600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr10:49608200-49618000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:49608200-49618200	Weak transcription	Fetal Kidney	kidney
37	chr10:49608200-49619400	Weak transcription	Colon Smooth Muscle	Colon
38	chr10:49608200-49621000	Weak transcription	Small Intestine	intestine
39	chr10:49608200-49634400	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr10:49608400-49614200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr10:49608400-49618200	Weak transcription	Duodenum Mucosa	Duodenum
42	chr10:49608600-49620200	Weak transcription	Right Ventricle	heart
43	chr10:49608800-49612600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr10:49608800-49613800	Weak transcription	NH-A	brain
45	chr10:49608800-49614200	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr10:49608800-49614200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr10:49608800-49614400	Weak transcription	NHLF	lung
48	chr10:49608800-49616800	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr10:49608800-49618000	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr10:49608800-49618200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links