Variant report

Variant	rs28631659
Chromosome Location	chr4:6907751-6907752
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6906905..6908997-chr4:7051562..7054124,2	MCF-7	breast:
2	chr4:6723305..6725872-chr4:6907079..6909245,2	MCF-7	breast:
3	chr4:6907240..6908836-chr4:6909905..6912766,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000132405	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10007838	1.00[AMR][1000 genomes]
rs10020561	1.00[AMR][1000 genomes]
rs10025944	1.00[AMR][1000 genomes]
rs13435398	1.00[AMR][1000 genomes]
rs13435488	1.00[AMR][1000 genomes]
rs28412715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28461523	1.00[AMR][1000 genomes]
rs28463590	1.00[AMR][1000 genomes]
rs28546580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28620599	1.00[AMR][1000 genomes]
rs28757648	1.00[AMR][1000 genomes]
rs73086431	1.00[AMR][1000 genomes]
rs73088550	1.00[AMR][1000 genomes]
rs9291119	1.00[AMR][1000 genomes]
rs9994021	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv4216	chr4:6876592-6915629	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6896800-6909200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:6898000-6909600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:6904000-6910400	Weak transcription	Right Atrium	heart
4	chr4:6904200-6909400	Weak transcription	Left Ventricle	heart
5	chr4:6904400-6908000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr4:6904400-6909200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:6904400-6909400	Weak transcription	Gastric	stomach
8	chr4:6904600-6909000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr4:6904600-6909000	Weak transcription	Fetal Heart	heart
10	chr4:6904600-6909000	Weak transcription	K562	blood
11	chr4:6905200-6908800	Weak transcription	Right Ventricle	heart
12	chr4:6906200-6909200	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr4:6906200-6910400	Enhancers	Liver	Liver
14	chr4:6906400-6909400	Enhancers	HepG2	liver
15	chr4:6906600-6908800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr4:6906600-6909200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr4:6906600-6909400	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr4:6906600-6909400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr4:6906600-6909600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr4:6906600-6909600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr4:6906600-6909800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr4:6906600-6910000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr4:6906800-6909000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr4:6906800-6909200	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr4:6906800-6909400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr4:6907000-6907800	Weak transcription	Esophagus	oesophagus
27	chr4:6907000-6908600	Enhancers	Brain Germinal Matrix	brain
28	chr4:6907200-6908000	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
29	chr4:6907200-6908200	Enhancers	Brain Hippocampus Middle	brain
30	chr4:6907200-6908400	Enhancers	Fetal Brain Male	brain
31	chr4:6907200-6908400	Bivalent Enhancer	Fetal Muscle Leg	muscle
32	chr4:6907400-6907800	Flanking Active TSS	Fetal Brain Female	brain
33	chr4:6907400-6908000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr4:6907400-6908000	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr4:6907400-6908200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr4:6907400-6908200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr4:6907400-6908200	Enhancers	Brain Angular Gyrus	brain
38	chr4:6907400-6908400	Enhancers	Brain Cingulate Gyrus	brain
39	chr4:6907400-6908800	Weak transcription	Pancreas	Pancrea
40	chr4:6907400-6910600	Enhancers	Spleen	Spleen
41	chr4:6907600-6908000	Enhancers	Brain Anterior Caudate	brain
42	chr4:6907600-6909400	Weak transcription	Brain Inferior Temporal Lobe	brain

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