Variant report

Variant	rs12346177
Chromosome Location	chr9:79065605-79065606
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:79057975..79060162-chr9:79063071..79066178,3	MCF-7	breast:
2	chr9:79065522..79068324-chr9:79072541..79074229,2	MCF-7	breast:
3	chr9:79017044..79018975-chr9:79065546..79068177,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187210	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10114296	1.00[AMR][1000 genomes]
rs10116860	1.00[AMR][1000 genomes]
rs10124464	1.00[AMR][1000 genomes]
rs10125804	1.00[AMR][1000 genomes]
rs11144872	1.00[AMR][1000 genomes]
rs11144874	1.00[AMR][1000 genomes]
rs11144885	1.00[AMR][1000 genomes]
rs11144886	1.00[AMR][1000 genomes]
rs12000283	1.00[AMR][1000 genomes]
rs12003653	1.00[AMR][1000 genomes]
rs12338735	1.00[AMR][1000 genomes]
rs12345290	1.00[AMR][1000 genomes]
rs12346217	1.00[AMR][1000 genomes]
rs12346978	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12349438	1.00[AMR][1000 genomes]
rs28391132	1.00[AMR][1000 genomes]
rs28435584	1.00[AMR][1000 genomes]
rs28477196	1.00[AMR][1000 genomes]
rs28591137	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28704710	1.00[AMR][1000 genomes]
rs28837371	1.00[AMR][1000 genomes]
rs55841807	1.00[AMR][1000 genomes]
rs55843495	1.00[AMR][1000 genomes]
rs55868826	1.00[AMR][1000 genomes]
rs57699869	1.00[AMR][1000 genomes]
rs61328249	1.00[AMR][1000 genomes]
rs7018821	1.00[AMR][1000 genomes]
rs7022424	1.00[AMR][1000 genomes]
rs7022806	1.00[AMR][1000 genomes]
rs7022930	1.00[AMR][1000 genomes]
rs7026641	1.00[AMR][1000 genomes]
rs7030639	1.00[AMR][1000 genomes]
rs7031173	1.00[AMR][1000 genomes]
rs7032475	1.00[AMR][1000 genomes]
rs7039907	1.00[AMR][1000 genomes]
rs7042938	1.00[AMR][1000 genomes]
rs7045064	1.00[AMR][1000 genomes]
rs73650203	1.00[AMR][1000 genomes]
rs73650204	1.00[AMR][1000 genomes]
rs73650205	1.00[AMR][1000 genomes]
rs73650206	1.00[AMR][1000 genomes]
rs73650208	1.00[AMR][1000 genomes]
rs73650209	1.00[AMR][1000 genomes]
rs73650210	1.00[AMR][1000 genomes]
rs73650211	1.00[AMR][1000 genomes]
rs73650212	1.00[AMR][1000 genomes]
rs73650217	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650218	1.00[AMR][1000 genomes]
rs73650220	1.00[AMR][1000 genomes]
rs73652926	1.00[AMR][1000 genomes]
rs73652927	1.00[AMR][1000 genomes]
rs73652930	1.00[AMR][1000 genomes]
rs73652940	1.00[AMR][1000 genomes]
rs73652941	1.00[AMR][1000 genomes]
rs73652942	1.00[AMR][1000 genomes]
rs73652943	1.00[AMR][1000 genomes]
rs73652944	1.00[AMR][1000 genomes]
rs73652945	1.00[AMR][1000 genomes]
rs7863426	1.00[AMR][1000 genomes]
rs7867442	1.00[AMR][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	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79062600-79065800	Weak transcription	A549	lung
2	chr9:79062800-79065800	Weak transcription	NH-A	brain
3	chr9:79063000-79065800	Weak transcription	HSMMtube	muscle
4	chr9:79063000-79067400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr9:79063000-79068000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:79063000-79070800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:79063200-79066200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:79063400-79068000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:79063600-79067800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:79064200-79067600	Weak transcription	Fetal Brain Male	brain
11	chr9:79064400-79067200	Enhancers	Muscle Satellite Cultured Cells	--
12	chr9:79064600-79071000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr9:79064800-79065800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr9:79065000-79066800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr9:79065000-79066800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:79065000-79067000	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr9:79065200-79066800	Enhancers	NHLF	lung
18	chr9:79065200-79067000	Enhancers	HSMM	muscle
19	chr9:79065200-79069200	Enhancers	NHDF-Ad	bronchial
20	chr9:79065400-79066800	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr9:79065400-79067000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:79065400-79067000	Enhancers	Osteobl	bone
23	chr9:79065600-79065800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links