Variant report

Variant	rs12769370
Chromosome Location	chr10:97032612-97032613
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97030116..97038568-chr10:97046190..97052064,12	MCF-7	breast:
2	chr10:97023957..97026874-chr10:97030558..97032855,2	MCF-7	breast:
3	chr10:97031617..97033623-chr10:97049399..97051211,2	K562	blood:

Variant related genes	Relation type
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10509685	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11872	0.85[CHB][hapmap]
rs12765981	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12783709	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453729	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17453764	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17453855	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17526000	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1854338	0.92[ASN][1000 genomes]
rs2296964	1.00[CHB][hapmap]
rs34976996	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35777379	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35830045	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs45444597	0.89[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs45447693	0.92[ASN][1000 genomes]
rs45493292	0.85[ASN][1000 genomes]
rs45498798	0.85[ASN][1000 genomes]
rs45518536	0.81[ASN][1000 genomes]
rs45533831	0.88[ASN][1000 genomes]
rs45554238	0.85[ASN][1000 genomes]
rs45555036	0.92[ASN][1000 genomes]
rs45562941	0.85[ASN][1000 genomes]
rs45569042	0.81[ASN][1000 genomes]
rs45591738	0.85[ASN][1000 genomes]
rs7912686	1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];0.92[ASN][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

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97016800-97036000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr10:97021000-97034400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr10:97021400-97036400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr10:97023200-97033000	Weak transcription	Psoas Muscle	Psoas
5	chr10:97024200-97033000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:97024400-97035000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:97024800-97049400	Weak transcription	Fetal Kidney	kidney
8	chr10:97026400-97033200	Weak transcription	Colon Smooth Muscle	Colon
9	chr10:97026800-97032800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr10:97026800-97036000	Weak transcription	Fetal Lung	lung
11	chr10:97027200-97033200	Weak transcription	Hela-S3	cervix
12	chr10:97027400-97035800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr10:97028600-97033200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr10:97028600-97033200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr10:97028600-97033400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr10:97028600-97036200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr10:97028600-97036200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr10:97028600-97038200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:97028800-97032800	Weak transcription	Small Intestine	intestine
20	chr10:97028800-97033000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr10:97028800-97033000	Weak transcription	Aorta	Aorta
22	chr10:97028800-97036000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr10:97029000-97032800	Weak transcription	Fetal Heart	heart
24	chr10:97029000-97032800	Weak transcription	Pancreas	Pancrea
25	chr10:97029000-97032800	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr10:97029000-97032800	Weak transcription	NH-A	brain
27	chr10:97029000-97033000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr10:97029000-97033000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr10:97029000-97033000	Weak transcription	Colonic Mucosa	Colon
30	chr10:97029000-97033000	Weak transcription	Esophagus	oesophagus
31	chr10:97029000-97033000	Weak transcription	Placenta	Placenta
32	chr10:97029000-97033000	Weak transcription	HSMM	muscle
33	chr10:97029000-97036000	Weak transcription	Fetal Thymus	thymus
34	chr10:97029000-97039200	Weak transcription	Fetal Muscle Leg	muscle
35	chr10:97029200-97032800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr10:97029200-97032800	Weak transcription	Right Ventricle	heart
37	chr10:97029200-97032800	Weak transcription	HUVEC	blood vessel
38	chr10:97029200-97033000	Weak transcription	Right Atrium	heart
39	chr10:97029200-97033000	Weak transcription	K562	blood
40	chr10:97029200-97033200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr10:97030200-97032800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr10:97030400-97032800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:97030400-97032800	Weak transcription	Osteobl	bone
44	chr10:97030400-97033000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr10:97030600-97032800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr10:97030600-97032800	Weak transcription	Duodenum Mucosa	Duodenum
47	chr10:97030600-97032800	Weak transcription	Lung	lung
48	chr10:97030600-97033000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr10:97030600-97036200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr10:97030600-97037800	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links