Variant report

Variant	rs10509685
Chromosome Location	chr10:97021389-97021390
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97007670..97009998-chr10:97020607..97023208,2	K562	blood:
2	chr10:97007090..97010166-chr10:97019600..97021879,3	MCF-7	breast:
3	chr10:97019128..97021944-chr10:97028081..97030163,2	MCF-7	breast:
4	chr10:96989618..96991184-chr10:97021389..97024082,2	MCF-7	breast:
5	chr10:97017870..97021906-chr10:97048495..97052362,4	MCF-7	breast:
6	chr10:96990145..96991863-chr10:97020383..97022213,2	MCF-7	breast:
7	chr10:97019690..97021827-chr10:97044842..97047086,2	MCF-7	breast:
8	chr10:97021192..97022891-chr10:97052326..97054601,2	K562	blood:
9	chr10:97018988..97023049-chr10:97048311..97051430,5	MCF-7	breast:
10	chr10:97010783..97013765-chr10:97019245..97021501,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000234026	Chromatin interaction
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11872	0.85[CHB][hapmap]
rs12765981	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12769370	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12783709	0.85[ASN][1000 genomes]
rs17453729	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453764	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453855	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17526000	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1854338	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2296964	1.00[CHB][hapmap]
rs34976996	0.85[ASN][1000 genomes]
rs35777379	0.81[ASN][1000 genomes]
rs35830045	0.92[ASN][1000 genomes]
rs45444597	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs45447693	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs45493292	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45498798	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45518536	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs45533831	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs45554238	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45555036	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs45562941	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45569042	0.95[ASN][1000 genomes]
rs45591738	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45605435	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7912686	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	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
3	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

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96991000-97024000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr10:96998400-97030200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr10:97000400-97024400	Weak transcription	Fetal Kidney	kidney
4	chr10:97007000-97026400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr10:97009200-97028200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr10:97015400-97022000	Strong transcription	Primary B cells from peripheral blood	blood
7	chr10:97016200-97022200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:97016200-97023000	Strong transcription	Sigmoid Colon	Sigmoid Colon
9	chr10:97016400-97023000	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr10:97016400-97026200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr10:97016800-97036000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:97017200-97024400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr10:97017400-97022000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
14	chr10:97017600-97022200	Strong transcription	Primary B cells from cord blood	blood
15	chr10:97018000-97024000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr10:97018800-97023800	Strong transcription	H9 Cell Line	embryonic stem cell
17	chr10:97018800-97030000	Weak transcription	Thymus	Thymus
18	chr10:97019200-97023400	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr10:97019200-97023600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:97019200-97024800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:97019400-97021400	Genic enhancers	Duodenum Mucosa	Duodenum
22	chr10:97019400-97026400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr10:97019600-97024800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:97019800-97021600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr10:97019800-97022000	Genic enhancers	NHDF-Ad	bronchial
26	chr10:97019800-97023600	Genic enhancers	Placenta Amnion	Placenta Amnion
27	chr10:97019800-97023800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr10:97020000-97021400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:97020000-97021600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr10:97020000-97022000	Enhancers	NHLF	lung
31	chr10:97020000-97022400	Enhancers	Fetal Heart	heart
32	chr10:97020000-97024000	Genic enhancers	Left Ventricle	heart
33	chr10:97020000-97026600	Genic enhancers	Fetal Intestine Large	intestine
34	chr10:97020200-97021400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr10:97020200-97021400	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr10:97020200-97021400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr10:97020200-97021400	Genic enhancers	Adipose Nuclei	Adipose
38	chr10:97020200-97021400	Genic enhancers	Fetal Stomach	stomach
39	chr10:97020200-97021400	Genic enhancers	Stomach Mucosa	stomach
40	chr10:97020200-97021400	Genic enhancers	K562	blood
41	chr10:97020200-97021600	Enhancers	Psoas Muscle	Psoas
42	chr10:97020200-97022600	Genic enhancers	Right Ventricle	heart
43	chr10:97020200-97023000	Weak transcription	Aorta	Aorta
44	chr10:97020200-97024200	Genic enhancers	Lung	lung
45	chr10:97020200-97024600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
46	chr10:97020200-97025000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr10:97020200-97026600	Genic enhancers	Fetal Intestine Small	intestine
48	chr10:97020200-97026600	Enhancers	Right Atrium	heart
49	chr10:97020400-97021400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr10:97020400-97021400	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links