Variant report

Variant	rs10436881
Chromosome Location	chr1:161744827-161744828
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:161743617..161746184-chr1:162530191..162532056,2	K562	blood:
2	chr1:161743460..161745094-chr1:161745276..161748154,2	K562	blood:
3	chr1:161739606..161743338-chr1:161743718..161745860,3	K562	blood:
4	chr1:161734598..161739436-chr1:161744782..161749660,8	K562	blood:
5	chr1:161744554..161749542-chr1:161749920..161753268,5	K562	blood:

Variant related genes	Relation type
ENSG00000226889	Chromatin interaction
ENSG00000117143	Chromatin interaction
ENSG00000259788	Chromatin interaction
ENSG00000118217	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10494357	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1063179	0.85[CHB][hapmap]
rs10800032	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10800079	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10917876	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10917968	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10918029	0.92[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs12024729	0.82[YRI][hapmap]
rs12042663	0.81[ASN][1000 genomes]
rs12045320	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12045333	0.85[YRI][hapmap]
rs12078104	0.85[CHB][hapmap]
rs12081397	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12086247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12097712	0.85[ASN][1000 genomes]
rs12405111	0.81[YRI][hapmap]
rs12691498	0.93[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1354370	0.82[YRI][hapmap]
rs1394066	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1503807	0.82[YRI][hapmap]
rs1503815	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16860777	0.81[YRI][hapmap]
rs1875762	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2089083	0.82[YRI][hapmap]
rs2134697	0.85[AFR][1000 genomes]
rs2271010	0.82[YRI][hapmap]
rs2340715	0.82[YRI][hapmap]
rs28628087	0.81[EUR][1000 genomes]
rs2880056	0.81[YRI][hapmap]
rs3767636	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3767637	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60578284	0.85[ASN][1000 genomes]
rs6427632	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6660014	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6672073	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6698956	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7355188	0.81[ASN][1000 genomes]
rs7513303	0.82[YRI][hapmap]
rs7516955	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7518743	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[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	nsv428257	chr1:161406315-161868263	Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	esv33393	chr1:161478681-162080327	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	nsv464184	chr1:161646807-161885352	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv548075	chr1:161646807-161885352	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers 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	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161736800-161752000	Weak transcription	Lung	lung
2	chr1:161736800-161754000	Weak transcription	Colonic Mucosa	Colon
3	chr1:161736800-161757200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:161737000-161745400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr1:161737000-161751600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:161737000-161752000	Weak transcription	Left Ventricle	heart
7	chr1:161737000-161765600	Weak transcription	Aorta	Aorta
8	chr1:161737200-161745000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr1:161737200-161746600	Weak transcription	NHLF	lung
10	chr1:161737200-161748000	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr1:161737200-161751200	Weak transcription	Placenta	Placenta
12	chr1:161737200-161751400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr1:161737200-161752200	Weak transcription	Psoas Muscle	Psoas
14	chr1:161737200-161752600	Weak transcription	Esophagus	oesophagus
15	chr1:161737200-161752800	Weak transcription	HSMMtube	muscle
16	chr1:161737200-161761600	Weak transcription	Fetal Brain Male	brain
17	chr1:161737200-161761600	Weak transcription	Right Ventricle	heart
18	chr1:161737200-161775200	Weak transcription	Fetal Stomach	stomach
19	chr1:161737200-161775800	Weak transcription	Stomach Mucosa	stomach
20	chr1:161737200-161780000	Weak transcription	Fetal Intestine Small	intestine
21	chr1:161737400-161750400	Weak transcription	Fetal Intestine Large	intestine
22	chr1:161737400-161751400	Weak transcription	Osteobl	bone
23	chr1:161737400-161752200	Weak transcription	HSMM	muscle
24	chr1:161737600-161745400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr1:161737600-161751400	Weak transcription	NHDF-Ad	bronchial
26	chr1:161737600-161752000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr1:161737600-161762000	Weak transcription	Fetal Lung	lung
28	chr1:161737600-161764600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:161737800-161750400	Weak transcription	Brain Germinal Matrix	brain
30	chr1:161738000-161752400	Weak transcription	Duodenum Mucosa	Duodenum
31	chr1:161738200-161752200	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr1:161738200-161753600	Weak transcription	Rectal Smooth Muscle	rectum
33	chr1:161738200-161760200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr1:161738400-161751200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr1:161738400-161754000	Weak transcription	Fetal Brain Female	brain
36	chr1:161738600-161747600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr1:161738600-161752200	Weak transcription	HepG2	liver
38	chr1:161738600-161752600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr1:161738600-161753800	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr1:161738600-161794000	Weak transcription	Pancreas	Pancrea
41	chr1:161738600-161795600	Weak transcription	Gastric	stomach
42	chr1:161739400-161752600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr1:161739400-161753800	Weak transcription	NH-A	brain
44	chr1:161739400-161753800	Weak transcription	NHEK	skin
45	chr1:161739600-161750600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr1:161740200-161751600	Weak transcription	Colon Smooth Muscle	Colon
47	chr1:161740400-161761800	Weak transcription	Ovary	ovary
48	chr1:161741400-161745400	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr1:161741600-161745000	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr1:161741600-161748000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links