Variant report

Variant	rs2296964
Chromosome Location	chr10:97023979-97023980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:96989618..96991184-chr10:97021389..97024082,2	MCF-7	breast:
2	chr10:97023957..97026874-chr10:97030558..97032855,2	MCF-7	breast:
3	chr10:97022981..97025591-chr10:97038019..97040228,2	MCF-7	breast:
4	chr10:97023146..97026051-chr10:97049239..97052357,4	MCF-7	breast:
5	chr10:97023872..97028051-chr10:97048144..97051430,5	K562	blood:
6	chr10:97023137..97024649-chr10:97048787..97050553,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107438	Chromatin interaction
ENSG00000234026	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10509685	1.00[CHB][hapmap]
rs10786194	0.94[AFR][1000 genomes]
rs11188253	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188254	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11596920	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11597364	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12765981	1.00[CHB][hapmap]
rs12768190	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12769370	1.00[CHB][hapmap]
rs17453729	1.00[CHB][hapmap]
rs17453764	1.00[CHB][hapmap]
rs17453855	1.00[CHB][hapmap]
rs17526000	1.00[CHB][hapmap]
rs2026679	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2296962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2296963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34566882	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3737015	0.94[AFR][1000 genomes]
rs4917682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4918907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583987	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7067902	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7068656	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079728	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7087560	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7095761	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7101278	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7895650	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910388	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912686	1.00[CHB][hapmap]
rs7923547	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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:96 , 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	chr10:97016400-97026200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr10:97016800-97036000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:97017200-97024400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr10:97018000-97024000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:97018800-97030000	Weak transcription	Thymus	Thymus
11	chr10:97019200-97024800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr10:97019400-97026400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr10:97019600-97024800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr10:97020000-97024000	Genic enhancers	Left Ventricle	heart
15	chr10:97020000-97026600	Genic enhancers	Fetal Intestine Large	intestine
16	chr10:97020200-97024200	Genic enhancers	Lung	lung
17	chr10:97020200-97024600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
18	chr10:97020200-97025000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr10:97020200-97026600	Genic enhancers	Fetal Intestine Small	intestine
20	chr10:97020200-97026600	Enhancers	Right Atrium	heart
21	chr10:97020400-97024400	Genic enhancers	HUES6 Cell Line	embryonic stem cell
22	chr10:97020400-97027000	Genic enhancers	HepG2	liver
23	chr10:97020800-97024400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr10:97021000-97026200	Weak transcription	Colon Smooth Muscle	Colon
25	chr10:97021000-97026600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr10:97021000-97034400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr10:97021200-97025200	Strong transcription	GM12878-XiMat	blood
28	chr10:97021200-97025400	Weak transcription	Fetal Lung	lung
29	chr10:97021200-97026000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr10:97021200-97026200	Weak transcription	HUVEC	blood vessel
31	chr10:97021200-97026600	Genic enhancers	NHEK	skin
32	chr10:97021400-97024000	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr10:97021400-97024000	Weak transcription	Hela-S3	cervix
34	chr10:97021400-97024200	Genic enhancers	A549	lung
35	chr10:97021400-97024400	Strong transcription	Fetal Stomach	stomach
36	chr10:97021400-97025800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr10:97021400-97026000	Weak transcription	NH-A	brain
38	chr10:97021400-97026200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:97021400-97026200	Weak transcription	Rectal Smooth Muscle	rectum
40	chr10:97021400-97036400	Weak transcription	Stomach Smooth Muscle	stomach
41	chr10:97021600-97024200	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr10:97021600-97024400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr10:97021600-97024600	Strong transcription	Colonic Mucosa	Colon
44	chr10:97021600-97027800	Weak transcription	HSMM	muscle
45	chr10:97021800-97024000	Strong transcription	Duodenum Smooth Muscle	Duodenum
46	chr10:97021800-97024400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr10:97021800-97025600	Strong transcription	Liver	Liver
48	chr10:97022000-97027400	Genic enhancers	Primary B cells from peripheral blood	blood
49	chr10:97022200-97024000	Strong transcription	Small Intestine	intestine
50	chr10:97022400-97024000	Genic enhancers	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links