Variant report

Variant	rs7908745
Chromosome Location	chr10:45953767-45953768
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:45949197..45952104-chr10:45952176..45956457,4	K562	blood:
2	chr10:45948847..45950863-chr10:45951978..45954302,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10466245	0.80[CEU][hapmap];0.81[GIH][hapmap]
rs10793619	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10793620	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10900218	0.93[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10900219	0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10900220	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10900221	0.81[CEU][hapmap];0.84[GIH][hapmap]
rs10900222	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11239528	0.89[GIH][hapmap]
rs11239535	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11239537	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11239541	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11239545	0.83[GIH][hapmap]
rs11239548	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11239550	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11239571	0.81[CEU][hapmap];0.81[GIH][hapmap]
rs11499089	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12249012	0.81[CEU][hapmap]
rs12265787	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12269352	0.92[CHB][hapmap];0.84[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12767823	0.93[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1982796	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34563674	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57491883	0.89[ASN][1000 genomes]
rs7086046	0.81[GIH][hapmap]
rs7089063	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs963029	0.90[ASN][1000 genomes]
rs964686	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs970548	0.81[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430166	chr10:45668894-46148794	Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv993428	chr10:45742877-46224333	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv895107	chr10:45850300-45953767	Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv895108	chr10:45878908-46224333	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv895109	chr10:45882741-46210665	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv895110	chr10:45912771-45953767	Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv1043536	chr10:45915941-46076235	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7908745	ZNF485	cis	parietal	SCAN
rs7908745	ALOX5	cis	parietal	SCAN
rs7908745	OR13A1	cis	cerebellum	SCAN
rs7908745	MARCH8	cis	cerebellum	SCAN
rs7908745	ZNF32	cis	parietal	SCAN
rs7908745	ALOX5	cis	cerebellum	SCAN

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45938600-45967200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:45938600-45967200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr10:45943200-45955000	Weak transcription	Colonic Mucosa	Colon
4	chr10:45943200-45965400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:45943400-45954000	Weak transcription	K562	blood
6	chr10:45946200-45954400	Weak transcription	Fetal Brain Female	brain
7	chr10:45948000-45963600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr10:45948400-45955600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:45948600-45955600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:45948600-45959800	Strong transcription	Fetal Intestine Small	intestine
11	chr10:45948600-45959800	Strong transcription	Fetal Stomach	stomach
12	chr10:45948800-45953800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr10:45949200-45965600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr10:45949400-45954400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:45949400-45955400	Strong transcription	Rectal Mucosa Donor 29	rectum
16	chr10:45949400-45959800	Strong transcription	Primary T cells from cord blood	blood
17	chr10:45949800-45954200	Weak transcription	HSMMtube	muscle
18	chr10:45949800-45958600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr10:45950000-45956800	Strong transcription	Stomach Smooth Muscle	stomach
20	chr10:45950000-45967200	Weak transcription	Psoas Muscle	Psoas
21	chr10:45950200-45959400	Strong transcription	Fetal Intestine Large	intestine
22	chr10:45950200-45960600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr10:45950400-45956800	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr10:45950400-45957000	Weak transcription	Fetal Kidney	kidney
25	chr10:45950400-45959400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr10:45950400-45959600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr10:45950400-45966200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:45950600-45958600	Weak transcription	Right Atrium	heart
29	chr10:45950800-45954800	Strong transcription	Brain Cingulate Gyrus	brain
30	chr10:45950800-45955400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:45950800-45955800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr10:45950800-45957000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr10:45950800-45965600	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr10:45951000-45953800	Strong transcription	Placenta	Placenta
35	chr10:45951000-45954200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr10:45951000-45955400	Strong transcription	Adipose Nuclei	Adipose
37	chr10:45951000-45955400	Strong transcription	Thymus	Thymus
38	chr10:45951000-45956400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr10:45951000-45956800	Strong transcription	Duodenum Mucosa	Duodenum
40	chr10:45951000-45958400	Weak transcription	Fetal Heart	heart
41	chr10:45951000-45958800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr10:45951000-45960600	Weak transcription	Fetal Brain Male	brain
43	chr10:45951000-45965600	Weak transcription	Brain Germinal Matrix	brain
44	chr10:45951200-45954800	Strong transcription	Esophagus	oesophagus
45	chr10:45951200-45955200	Strong transcription	Gastric	stomach
46	chr10:45951200-45958600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr10:45951200-45959000	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr10:45951200-45959400	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr10:45951200-45959600	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr10:45951200-45959600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links