Variant report

Variant	rs6477599
Chromosome Location	chr9:110517299-110517300
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110300257..110302612-chr9:110514562..110517473,2	MCF-7	breast:
2	chr9:110517281..110517920-chr9:110567178..110567695,2	MCF-7	breast:
3	chr9:110515788..110518055-chr9:110572897..110574723,2	MCF-7	breast:
4	chr9:110246450..110254025-chr9:110510483..110522079,28	MCF-7	breast:
5	chr9:110246498..110248989-chr9:110515168..110518438,3	MCF-7	breast:
6	chr9:110517240..110518079-chr9:110567079..110567605,3	MCF-7	breast:
7	chr9:110241813..110245896-chr9:110516233..110519941,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction
ENSG00000244104	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10979040	0.81[ASN][1000 genomes]
rs1970014	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2104759	0.81[ASN][1000 genomes]
rs2140480	0.83[EUR][1000 genomes]
rs2140483	0.81[ASN][1000 genomes]
rs944172	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][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	nsv427850	chr9:110456613-110632324	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv428221	chr9:110456613-110632324	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv520911	chr9:110504358-110517794	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv508561	chr9:110506336-110545367	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110512400-110518000	Weak transcription	Spleen	Spleen
2	chr9:110512400-110520000	Weak transcription	Psoas Muscle	Psoas
3	chr9:110514400-110517400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr9:110514600-110517400	Weak transcription	Adipose Nuclei	Adipose
5	chr9:110514600-110517400	Weak transcription	Fetal Brain Male	brain
6	chr9:110514600-110517400	Weak transcription	NH-A	brain
7	chr9:110514600-110517600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:110514600-110523200	Weak transcription	K562	blood
9	chr9:110514800-110517400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:110514800-110517400	Weak transcription	Fetal Muscle Leg	muscle
11	chr9:110514800-110517400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr9:110514800-110522600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:110515400-110517400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:110515400-110517800	Weak transcription	Stomach Mucosa	stomach
15	chr9:110515400-110523000	Weak transcription	Left Ventricle	heart
16	chr9:110516200-110518600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:110516800-110517400	Enhancers	A549	lung
18	chr9:110516800-110518200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:110516800-110518200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:110516800-110518200	Enhancers	HMEC	breast
21	chr9:110516800-110518400	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr9:110516800-110518400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:110516800-110518400	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr9:110516800-110518400	Enhancers	NHEK	skin
25	chr9:110517000-110517400	Enhancers	Muscle Satellite Cultured Cells	--
26	chr9:110517000-110517800	Enhancers	Small Intestine	intestine
27	chr9:110517000-110518200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:110517000-110518400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr9:110517000-110519600	Enhancers	Placenta	Placenta
30	chr9:110517200-110517400	Enhancers	Esophagus	oesophagus
31	chr9:110517200-110517400	Enhancers	Fetal Muscle Trunk	muscle
32	chr9:110517200-110517400	Enhancers	HUVEC	blood vessel
33	chr9:110517200-110517400	Enhancers	Osteobl	bone
34	chr9:110517200-110517600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr9:110517200-110517600	Flanking Active TSS	Hela-S3	cervix
36	chr9:110517200-110517800	Enhancers	Lung	lung
37	chr9:110517200-110517800	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr9:110517200-110518000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr9:110517200-110518000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:110517200-110518200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:110517200-110518200	Enhancers	Fetal Intestine Large	intestine
42	chr9:110517200-110518200	Enhancers	HSMM	muscle
43	chr9:110517200-110518200	Enhancers	HSMMtube	muscle
44	chr9:110517200-110518200	Enhancers	NHLF	lung
45	chr9:110517200-110518400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr9:110517200-110518400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr9:110517200-110518400	Enhancers	Duodenum Mucosa	Duodenum
48	chr9:110517200-110518400	Enhancers	Fetal Intestine Small	intestine
49	chr9:110517200-110518400	Enhancers	Rectal Mucosa Donor 31	rectum
50	chr9:110517200-110518400	Enhancers	NHDF-Ad	bronchial

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