Variant report

Variant	rs10869837
Chromosome Location	chr9:79450293-79450294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:79448266..79451222-chr9:79453871..79455788,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10869833	0.81[AMR][1000 genomes]
rs10869834	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10869835	0.85[AMR][1000 genomes]
rs11145085	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1343394	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1936292	0.81[AMR][1000 genomes]
rs2000288	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2000289	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7022561	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7039403	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7855857	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7867564	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv2758190	chr9:79365865-79673907	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759697	chr9:79365865-79673907	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79418400-79451000	Weak transcription	Fetal Stomach	stomach
2	chr9:79435600-79455800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:79441200-79450800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:79441400-79461000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:79449000-79452400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:79449000-79452600	Enhancers	Rectal Smooth Muscle	rectum
7	chr9:79449200-79451600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr9:79449200-79451600	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:79449400-79451600	Enhancers	Brain Hippocampus Middle	brain
10	chr9:79449400-79451600	Enhancers	Brain Substantia Nigra	brain
11	chr9:79449400-79451800	Enhancers	NH-A	brain
12	chr9:79449600-79450400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:79449600-79450400	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr9:79449600-79451200	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr9:79449600-79451200	Enhancers	Adipose Nuclei	Adipose
16	chr9:79449600-79451600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:79449600-79451600	Enhancers	HSMMtube	muscle
18	chr9:79449600-79451800	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr9:79449800-79450400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:79449800-79450400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:79449800-79450400	Flanking Active TSS	NHDF-Ad	bronchial
22	chr9:79449800-79451200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:79449800-79451200	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr9:79449800-79451200	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr9:79449800-79451200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr9:79449800-79451200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr9:79449800-79451400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr9:79449800-79451400	Active TSS	Stomach Smooth Muscle	stomach
29	chr9:79449800-79451600	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr9:79449800-79451600	Enhancers	A549	lung
31	chr9:79450000-79450400	Enhancers	HSMM	muscle
32	chr9:79450000-79450800	Weak transcription	Brain Anterior Caudate	brain
33	chr9:79450000-79451000	Weak transcription	Aorta	Aorta
34	chr9:79450000-79451000	Weak transcription	Colon Smooth Muscle	Colon
35	chr9:79450000-79451000	Active TSS	Skeletal Muscle Female	skeletal muscle
36	chr9:79450000-79451600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:79450000-79454200	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr9:79450000-79478400	Weak transcription	Brain Angular Gyrus	brain
39	chr9:79450200-79450600	Weak transcription	Brain Cingulate Gyrus	brain
40	chr9:79450200-79450600	Active TSS	NHLF	lung
41	chr9:79450200-79450600	Active TSS	Osteobl	bone
42	chr9:79450200-79451000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr9:79450200-79451000	Active TSS	Pancreatic Islets	Pancreatic Islet
44	chr9:79450200-79451200	Flanking Active TSS	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links