Variant report

Variant	rs28708489
Chromosome Location	chr8:64134586-64134587
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:64085254..64087661-chr8:64131958..64134792,2	MCF-7	breast:
2	chr8:64134507..64135460-chr8:64213390..64213927,3	K562	blood:
3	chr8:64079083..64082581-chr8:64133450..64136744,4	K562	blood:
4	chr8:64134184..64135067-chr8:64213274..64214202,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000270673	Chromatin interaction
ENSG00000185728	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10088859	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10092975	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10098087	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10098776	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10104382	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10110931	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10112454	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16930250	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1897987	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4074214	0.88[ASN][1000 genomes]
rs56175034	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58009465	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6991542	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6994169	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7011915	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73684829	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73686712	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73686715	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs892850	0.99[ASN][1000 genomes]
rs9657033	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9792339	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[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	nsv831342	chr8:64084331-64294941	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv890967	chr8:64107847-64454446	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:64101600-64136000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr8:64119600-64138800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr8:64122600-64138600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr8:64122800-64135000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr8:64122800-64135000	Weak transcription	GM12878-XiMat	blood
6	chr8:64122800-64135200	Weak transcription	Fetal Kidney	kidney
7	chr8:64123000-64138200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr8:64124000-64135000	Weak transcription	Liver	Liver
9	chr8:64124400-64135000	Weak transcription	Primary B cells from peripheral blood	blood
10	chr8:64124400-64138800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr8:64124600-64135400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr8:64126200-64135000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr8:64126200-64138800	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr8:64126400-64135000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr8:64126400-64138400	Weak transcription	Dnd41	blood
16	chr8:64126600-64135000	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr8:64126600-64135200	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr8:64127400-64134800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr8:64127600-64135000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr8:64127800-64135000	Weak transcription	Primary B cells from cord blood	blood
21	chr8:64127800-64138800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr8:64127800-64138800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr8:64128200-64138400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr8:64128400-64139000	Weak transcription	Fetal Thymus	thymus
25	chr8:64131200-64134600	Enhancers	HMEC	breast
26	chr8:64131400-64136000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr8:64131800-64135200	Enhancers	Hela-S3	cervix
28	chr8:64132000-64134600	Enhancers	Fetal Intestine Large	intestine
29	chr8:64132000-64134600	Enhancers	Ovary	ovary
30	chr8:64132000-64134600	Enhancers	Right Atrium	heart
31	chr8:64132600-64134800	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr8:64132800-64139200	Weak transcription	Spleen	Spleen
33	chr8:64133200-64134800	Weak transcription	Primary T cells from cord blood	blood
34	chr8:64133200-64135000	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr8:64133200-64135000	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr8:64133400-64134600	Weak transcription	Brain Hippocampus Middle	brain
37	chr8:64133400-64134600	Enhancers	HSMMtube	muscle
38	chr8:64133400-64135000	Weak transcription	Brain Anterior Caudate	brain
39	chr8:64133400-64138000	Weak transcription	Adipose Nuclei	Adipose
40	chr8:64133400-64140000	Enhancers	HUVEC	blood vessel
41	chr8:64133600-64134800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr8:64133600-64134800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr8:64133600-64135000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr8:64133600-64135000	Weak transcription	Stomach Mucosa	stomach
45	chr8:64133600-64135800	Enhancers	Osteobl	bone
46	chr8:64133600-64136600	Enhancers	A549	lung
47	chr8:64133600-64136600	Enhancers	HSMM	muscle
48	chr8:64133600-64138800	Weak transcription	Small Intestine	intestine
49	chr8:64133800-64134600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr8:64133800-64134600	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