Variant report

Variant	rs10786195
Chromosome Location	chr10:97039458-97039459
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97035457..97038031-chr10:97038055..97040397,3	MCF-7	breast:
2	chr10:97036635..97040671-chr10:97047353..97052076,8	K562	blood:
3	chr10:97035976..97040217-chr10:97047732..97050873,5	K562	blood:
4	chr10:97038716..97042709-chr10:97043945..97047071,5	K562	blood:
5	chr10:97038835..97040878-chr10:97054289..97056491,2	K562	blood:
6	chr10:97038762..97040943-chr10:97046826..97048982,3	MCF-7	breast:
7	chr10:97022981..97025591-chr10:97038019..97040228,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11188250	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs11188255	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593722	0.83[CEU][hapmap];1.00[CHB][hapmap];0.83[TSI][hapmap];0.80[EUR][1000 genomes]
rs11594748	0.85[EUR][1000 genomes]
rs12413028	0.85[MEX][hapmap]
rs12415795	0.85[MEX][hapmap]
rs12775067	0.84[EUR][1000 genomes]
rs1385065	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17110556	0.83[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs2296961	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs35497513	0.85[EUR][1000 genomes]
rs4917683	0.85[JPT][hapmap]
rs4918905	0.86[EUR][1000 genomes]
rs4918908	0.85[EUR][1000 genomes]
rs58140424	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS 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	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10786195	LOXL4	cis	cerebellum	SCAN
rs10786195	PDLIM1	cis	cerebellum	SCAN
rs10786195	HELLS	cis	cerebellum	SCAN
rs10786195	ZFYVE27	cis	cerebellum	SCAN
rs10786195	PIPSL	cis	cerebellum	SCAN

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97024800-97049400	Weak transcription	Fetal Kidney	kidney
2	chr10:97031600-97046600	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr10:97032400-97040800	Enhancers	Stomach Mucosa	stomach
4	chr10:97032600-97041000	Enhancers	Fetal Intestine Large	intestine
5	chr10:97032600-97043600	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr10:97032800-97042800	Enhancers	Small Intestine	intestine
7	chr10:97033000-97039800	Enhancers	K562	blood
8	chr10:97033600-97040000	Enhancers	Adipose Nuclei	Adipose
9	chr10:97033800-97039800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr10:97033800-97041600	Enhancers	NHLF	lung
11	chr10:97033800-97042400	Enhancers	Osteobl	bone
12	chr10:97034000-97040600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr10:97034000-97042000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:97034000-97042400	Enhancers	NHDF-Ad	bronchial
15	chr10:97034000-97045000	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr10:97034000-97046400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr10:97035600-97041200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:97035600-97041200	Enhancers	HepG2	liver
19	chr10:97036000-97041600	Enhancers	Primary B cells from peripheral blood	blood
20	chr10:97036400-97041600	Enhancers	HMEC	breast
21	chr10:97036400-97046600	Weak transcription	Fetal Lung	lung
22	chr10:97036600-97047200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr10:97037000-97046400	Weak transcription	Primary B cells from cord blood	blood
24	chr10:97037200-97042200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:97037200-97045000	Weak transcription	Gastric	stomach
26	chr10:97037600-97039600	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr10:97037600-97039800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr10:97037600-97041000	Enhancers	Fetal Heart	heart
29	chr10:97037800-97039800	Flanking Active TSS	A549	lung
30	chr10:97037800-97040200	Enhancers	Liver	Liver
31	chr10:97037800-97040400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr10:97038000-97039800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr10:97038200-97040800	Enhancers	Placenta Amnion	Placenta Amnion
34	chr10:97038200-97041200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr10:97038200-97041200	Weak transcription	Esophagus	oesophagus
36	chr10:97038200-97042800	Enhancers	NHEK	skin
37	chr10:97038400-97041000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr10:97038400-97041400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr10:97038400-97046600	Weak transcription	Placenta	Placenta
40	chr10:97038600-97039800	Flanking Active TSS	GM12878-XiMat	blood
41	chr10:97038600-97040200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr10:97038600-97040400	Weak transcription	Right Atrium	heart
43	chr10:97038600-97041200	Weak transcription	Aorta	Aorta
44	chr10:97038600-97044600	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr10:97038600-97044600	Weak transcription	Spleen	Spleen
46	chr10:97038600-97048800	Weak transcription	Fetal Thymus	thymus
47	chr10:97038600-97049000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr10:97038800-97040200	Weak transcription	Thymus	Thymus
49	chr10:97038800-97040400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr10:97038800-97040400	Weak transcription	H9 Cell Line	embryonic stem cell

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