Variant report

Variant	rs10795547
Chromosome Location	chr10:5827074-5827075
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10508296	0.92[ASN][1000 genomes]
rs10737013	0.81[EUR][1000 genomes]
rs10737019	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10737021	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10752069	0.81[EUR][1000 genomes]
rs10752110	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10752111	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10795347	1.00[CHB][hapmap]
rs10795520	0.84[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10795541	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10905065	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10905137	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10905234	0.93[ASN][1000 genomes]
rs10905255	0.90[ASN][1000 genomes]
rs10905256	0.86[ASN][1000 genomes]
rs11254266	0.81[TSI][hapmap]
rs11255085	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11255228	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11598374	0.88[EUR][1000 genomes]
rs1317420	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1533215	0.90[ASN][1000 genomes]
rs1567706	0.87[CEU][hapmap];0.98[TSI][hapmap]
rs1567707	0.87[CEU][hapmap]
rs1858447	0.87[CEU][hapmap];0.98[TSI][hapmap]
rs1967487	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2175630	0.96[CEU][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs2244755	0.93[TSI][hapmap]
rs2246399	1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2380199	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2380202	0.84[EUR][1000 genomes]
rs2380203	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2497	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs2797488	0.95[TSI][hapmap]
rs2890365	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2892078	0.83[EUR][1000 genomes]
rs3736462	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4237365	0.89[EUR][1000 genomes]
rs4748913	0.84[EUR][1000 genomes]
rs4748916	0.83[EUR][1000 genomes]
rs60840965	0.84[EUR][1000 genomes]
rs6602240	0.87[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs6602259	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6602278	0.93[CHB][hapmap];0.84[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.91[ASN][1000 genomes]
rs7078711	0.95[TSI][hapmap]
rs7089100	0.87[CEU][hapmap];0.90[YRI][hapmap]
rs7096742	0.95[TSI][hapmap]
rs7100576	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7906719	0.81[EUR][1000 genomes]
rs7909733	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7913067	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7916827	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9423726	0.93[TSI][hapmap]
rs9423936	0.81[CHB][hapmap];0.87[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats 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	68 gene(s)	inside rSNPs	diseases
2	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
5	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv947730	chr10:5817688-5827238	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv515935	chr10:5820394-5869839	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv549896	chr10:5820394-5880066	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10795547	GDI2	cis	uninvolved skin	skin_eQTL
rs10795547	GDI2	cis	cerebellum	SCAN
rs10795547	GDI2	cis	parietal	SCAN

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5762600-5843400	Strong transcription	Dnd41	blood
2	chr10:5762800-5843000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr10:5768000-5849400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:5797400-5847400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr10:5798000-5842800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr10:5798200-5843000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr10:5798600-5842800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr10:5805000-5843200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:5817200-5831200	Weak transcription	Pancreas	Pancrea
10	chr10:5818000-5854200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr10:5818400-5842800	Strong transcription	Duodenum Mucosa	Duodenum
12	chr10:5818800-5827400	Weak transcription	Stomach Mucosa	stomach
13	chr10:5818800-5842600	Strong transcription	Fetal Thymus	thymus
14	chr10:5819600-5844000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr10:5820200-5833400	Strong transcription	HepG2	liver
16	chr10:5820200-5840400	Strong transcription	HSMM	muscle
17	chr10:5820200-5842800	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr10:5820400-5843000	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr10:5820400-5843000	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr10:5820600-5842800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr10:5821200-5832000	Strong transcription	Liver	Liver
22	chr10:5821800-5829400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr10:5821800-5838800	Strong transcription	Cortex derived primary cultured neurospheres	brain
24	chr10:5822000-5828800	Strong transcription	Muscle Satellite Cultured Cells	--
25	chr10:5822000-5829400	Strong transcription	Osteobl	bone
26	chr10:5822000-5843800	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr10:5822200-5842600	Strong transcription	Primary B cells from peripheral blood	blood
28	chr10:5822200-5843400	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr10:5822400-5833400	Strong transcription	K562	blood
30	chr10:5822400-5842600	Strong transcription	Primary neutrophils fromperipheralblood	blood
31	chr10:5822400-5842800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
32	chr10:5822600-5842800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr10:5822600-5842800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:5823400-5829800	Strong transcription	NH-A	brain
35	chr10:5823600-5827600	Strong transcription	HSMMtube	muscle
36	chr10:5823600-5828600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr10:5823600-5829000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr10:5823600-5830200	Strong transcription	A549	lung
39	chr10:5823600-5830800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr10:5823600-5842600	Strong transcription	Placenta	Placenta
41	chr10:5823800-5828000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr10:5823800-5828600	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr10:5823800-5828800	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr10:5823800-5829000	Strong transcription	Fetal Kidney	kidney
45	chr10:5823800-5829200	Strong transcription	HUVEC	blood vessel
46	chr10:5823800-5833400	Strong transcription	Left Ventricle	heart
47	chr10:5823800-5842600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr10:5823800-5842600	Strong transcription	Fetal Muscle Trunk	muscle
49	chr10:5823800-5843400	Strong transcription	Thymus	Thymus
50	chr10:5824000-5827200	ZNF genes & repeats	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links