Variant report

Variant	rs28589797
Chromosome Location	chr8:125381766-125381767
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:125371550..125374113-chr8:125379981..125382603,2	MCF-7	breast:
2	chr8:125380396..125382052-chr8:125382659..125384185,2	K562	blood:
3	chr8:125366347..125368415-chr8:125380893..125382966,2	MCF-7	breast:
4	chr8:125373697..125375415-chr8:125381525..125384345,2	MCF-7	breast:
5	chr8:125366767..125369053-chr8:125379214..125381905,2	K562	blood:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10090489	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10093809	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10093812	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10096657	0.85[EUR][1000 genomes]
rs10105192	0.80[EUR][1000 genomes]
rs16899577	0.85[EUR][1000 genomes]
rs17297352	0.83[EUR][1000 genomes]
rs17369737	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs17369758	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs17369882	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28456315	0.85[AFR][1000 genomes]
rs28460280	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28485247	0.93[ASN][1000 genomes]
rs28536158	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28538795	0.85[EUR][1000 genomes]
rs28562339	0.96[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28594441	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28657471	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28721926	0.83[AFR][1000 genomes]
rs28827823	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4316136	0.98[ASN][1000 genomes]
rs4406374	0.82[EUR][1000 genomes]
rs55931807	0.82[EUR][1000 genomes]
rs56036293	0.80[EUR][1000 genomes]
rs56142132	0.80[EUR][1000 genomes]
rs56166945	0.82[EUR][1000 genomes]
rs56202566	0.82[EUR][1000 genomes]
rs56893629	0.82[EUR][1000 genomes]
rs58908685	0.82[EUR][1000 genomes]
rs66538719	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66579093	0.88[ASN][1000 genomes]
rs67086747	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6990592	0.98[ASN][1000 genomes]
rs6990925	0.98[ASN][1000 genomes]
rs7015493	0.82[EUR][1000 genomes]
rs72711162	0.98[ASN][1000 genomes]
rs72721427	0.96[ASN][1000 genomes]
rs72721429	0.96[ASN][1000 genomes]
rs72721430	0.98[ASN][1000 genomes]
rs72721432	0.98[ASN][1000 genomes]
rs72721435	0.98[ASN][1000 genomes]
rs72721437	0.98[ASN][1000 genomes]
rs72721440	0.95[ASN][1000 genomes]
rs72721441	0.98[ASN][1000 genomes]
rs72721443	0.98[ASN][1000 genomes]
rs73332159	0.85[EUR][1000 genomes]
rs73332190	0.85[EUR][1000 genomes]
rs73332191	0.85[EUR][1000 genomes]
rs73333910	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs73333911	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs73333937	0.82[EUR][1000 genomes]
rs73333990	0.80[EUR][1000 genomes]
rs73333993	0.80[EUR][1000 genomes]
rs73333994	0.80[EUR][1000 genomes]
rs73336155	0.80[EUR][1000 genomes]
rs73336165	0.80[EUR][1000 genomes]
rs73336173	0.80[EUR][1000 genomes]
rs73336179	0.80[EUR][1000 genomes]
rs73336181	0.80[EUR][1000 genomes]
rs73336185	0.80[EUR][1000 genomes]
rs73336202	0.80[EUR][1000 genomes]
rs73337903	0.80[EUR][1000 genomes]
rs73337904	0.80[EUR][1000 genomes]
rs7819589	0.80[EUR][1000 genomes]
rs7833150	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7835963	0.80[EUR][1000 genomes]
rs7836478	0.80[EUR][1000 genomes]
rs9886564	0.85[EUR][1000 genomes];0.98[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	esv2762769	chr8:125167256-125480574	Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv521356	chr8:125309055-125404763	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1034768	chr8:125323011-125481733	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv527751	chr8:125338216-125431030	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125362800-125382800	Weak transcription	Ovary	ovary
2	chr8:125367200-125382000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr8:125371400-125382800	Weak transcription	Fetal Intestine Large	intestine
4	chr8:125376400-125382000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
5	chr8:125376600-125382000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr8:125376800-125382800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr8:125376800-125383400	Weak transcription	Esophagus	oesophagus
8	chr8:125377000-125382000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr8:125377200-125381800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr8:125377200-125381800	Weak transcription	NHEK	skin
11	chr8:125377200-125382000	Weak transcription	Adipose Nuclei	Adipose
12	chr8:125377200-125382000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr8:125377200-125382400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr8:125377200-125382400	Weak transcription	Osteobl	bone
15	chr8:125377200-125382800	Weak transcription	Fetal Kidney	kidney
16	chr8:125377400-125381800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr8:125377400-125382000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr8:125377400-125382000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr8:125377400-125382000	Weak transcription	Liver	Liver
20	chr8:125377400-125382600	Weak transcription	NHLF	lung
21	chr8:125377800-125382000	Weak transcription	Primary B cells from cord blood	blood
22	chr8:125377800-125382000	Weak transcription	HSMM	muscle
23	chr8:125377800-125382000	Weak transcription	NHDF-Ad	bronchial
24	chr8:125377800-125382400	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr8:125378800-125381800	Weak transcription	HepG2	liver
26	chr8:125378800-125383400	Weak transcription	Aorta	Aorta
27	chr8:125378800-125383400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr8:125379200-125383600	Weak transcription	Lung	lung
29	chr8:125379400-125383400	Weak transcription	Small Intestine	intestine
30	chr8:125379600-125381800	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr8:125379600-125383600	Weak transcription	Gastric	stomach
32	chr8:125380000-125382000	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr8:125380000-125382600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr8:125380200-125382400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr8:125380200-125382400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr8:125380400-125382200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr8:125380400-125382400	Enhancers	Primary T cells from cord blood	blood
38	chr8:125380600-125381800	Enhancers	Duodenum Mucosa	Duodenum
39	chr8:125380600-125382000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr8:125380600-125382000	Enhancers	Primary hematopoietic stem cells	blood
41	chr8:125380600-125382400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr8:125380600-125382600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
43	chr8:125380600-125382600	Enhancers	Fetal Brain Male	brain
44	chr8:125380600-125382800	Enhancers	Primary T helper naive cells from peripheral blood	blood
45	chr8:125380600-125383600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr8:125380800-125381800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr8:125380800-125382200	Enhancers	Primary monocytes fromperipheralblood	blood
48	chr8:125381000-125381800	Enhancers	Brain Germinal Matrix	brain
49	chr8:125381000-125381800	Weak transcription	Right Atrium	heart
50	chr8:125381000-125382000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links