Variant report

Variant	rs56338410
Chromosome Location	chr9:97436423-97436424
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97433316..97436555-chr9:97441154..97443676,3	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10081702	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10117499	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10117956	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118261	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10119354	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10124091	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124217	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993307	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10993320	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12115845	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12336203	0.89[EUR][1000 genomes]
rs12337796	0.80[EUR][1000 genomes]
rs12339221	0.88[EUR][1000 genomes]
rs12339300	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12339942	0.85[EUR][1000 genomes]
rs12344517	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12344604	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12346245	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347853	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12350284	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12685159	0.88[EUR][1000 genomes]
rs13287373	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13295608	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13298361	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1571144	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16911536	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16911594	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34000226	0.88[EUR][1000 genomes]
rs34089610	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34165368	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34198898	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34274440	0.80[EUR][1000 genomes]
rs34540802	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34705993	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35060589	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35121098	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35414853	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35557606	0.88[EUR][1000 genomes]
rs35823631	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35840707	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35984007	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36025648	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36039841	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs41281164	0.86[EUR][1000 genomes]
rs55718833	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56268713	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60605105	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61247576	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61388738	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6479563	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67161795	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67845333	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032765	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72747008	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7850175	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7859242	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7871632	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7874823	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9696054	0.85[EUR][1000 genomes]
rs9696547	0.87[EUR][1000 genomes];0.87[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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97431600-97436800	Weak transcription	HSMMtube	muscle
2	chr9:97431600-97437200	Weak transcription	Fetal Kidney	kidney
3	chr9:97431800-97437000	Weak transcription	Adipose Nuclei	Adipose
4	chr9:97431800-97441000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:97432000-97438600	Weak transcription	Ovary	ovary
6	chr9:97432200-97437800	Weak transcription	Fetal Intestine Small	intestine
7	chr9:97432200-97449800	Weak transcription	Right Atrium	heart
8	chr9:97432400-97437000	Weak transcription	HepG2	liver
9	chr9:97434400-97439000	Enhancers	NHDF-Ad	bronchial
10	chr9:97434800-97438800	Enhancers	Muscle Satellite Cultured Cells	--
11	chr9:97435000-97436600	Enhancers	Hela-S3	cervix
12	chr9:97435000-97438000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr9:97435000-97438800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr9:97435200-97439000	Enhancers	HSMM	muscle
15	chr9:97435600-97437200	Weak transcription	A549	lung
16	chr9:97435800-97437000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:97436000-97436600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:97436000-97437000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:97436000-97437000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:97436000-97437000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr9:97436000-97437000	Weak transcription	NHLF	lung
22	chr9:97436000-97437200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr9:97436000-97437200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr9:97436000-97437200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr9:97436000-97437200	Weak transcription	NH-A	brain
26	chr9:97436000-97437400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:97436200-97437200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr9:97436200-97437400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr9:97436400-97436800	Weak transcription	HMEC	breast
30	chr9:97436400-97436800	Weak transcription	NHEK	skin
31	chr9:97436400-97436800	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links