Variant report

Variant	rs59727648
Chromosome Location	chr9:94065676-94065677
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:94065187..94067539-chr9:94184475..94187374,2	MCF-7	breast:
2	chr9:94063221..94065813-chr9:94122626..94124840,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165030	Chromatin interaction
ENSG00000148090	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10991848	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10991849	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10991853	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10991880	0.83[EUR][1000 genomes]
rs10991882	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10991900	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12683737	0.92[EUR][1000 genomes]
rs1331691	0.84[EUR][1000 genomes]
rs1397575	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16907358	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16907394	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1848984	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1877125	0.85[EUR][1000 genomes]
rs4480236	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55642352	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479337	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7019926	0.86[EUR][1000 genomes]
rs7020893	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7028794	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7042178	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7852888	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7866204	0.85[EUR][1000 genomes]
rs7868501	0.85[EUR][1000 genomes]
rs7868771	0.81[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	nsv893570	chr9:93973938-94148084	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv482877	chr9:93979351-94157734	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94019400-94068200	Weak transcription	Right Ventricle	heart
2	chr9:94029400-94080000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr9:94033800-94096400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:94039200-94089800	Weak transcription	Esophagus	oesophagus
5	chr9:94042000-94071800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:94052000-94119200	Weak transcription	Small Intestine	intestine
7	chr9:94053400-94103800	Weak transcription	HSMMtube	muscle
8	chr9:94055600-94089600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:94056400-94067800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr9:94056400-94089400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr9:94056600-94067600	Weak transcription	Fetal Heart	heart
12	chr9:94057000-94068600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:94057600-94072000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr9:94057600-94086400	Weak transcription	Fetal Brain Male	brain
15	chr9:94057600-94089400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:94058000-94088000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr9:94058400-94065800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr9:94058400-94066000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr9:94058400-94066200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr9:94058400-94068000	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:94058400-94071800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:94058400-94080400	Weak transcription	Fetal Kidney	kidney
23	chr9:94058400-94089400	Weak transcription	Brain Angular Gyrus	brain
24	chr9:94058800-94091800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr9:94059200-94089400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:94059400-94077600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr9:94059600-94074000	Weak transcription	Spleen	Spleen
28	chr9:94059600-94077000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr9:94059600-94080400	Weak transcription	Fetal Muscle Trunk	muscle
30	chr9:94059600-94080600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr9:94059600-94082000	Weak transcription	Gastric	stomach
32	chr9:94059600-94103400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr9:94059800-94065800	Weak transcription	HepG2	liver
34	chr9:94059800-94066000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr9:94059800-94071800	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr9:94059800-94072400	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr9:94059800-94089400	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr9:94059800-94089400	Weak transcription	Dnd41	blood
39	chr9:94059800-94089600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr9:94059800-94101400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr9:94060000-94068000	Weak transcription	Lung	lung
42	chr9:94060000-94071600	Weak transcription	Fetal Brain Female	brain
43	chr9:94060000-94072000	Weak transcription	Fetal Muscle Leg	muscle
44	chr9:94060000-94080200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr9:94060000-94080600	Weak transcription	Liver	Liver
46	chr9:94060000-94089200	Weak transcription	Primary B cells from peripheral blood	blood
47	chr9:94060200-94072000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr9:94060200-94089400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr9:94060400-94089400	Weak transcription	Fetal Thymus	thymus
50	chr9:94061000-94084600	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links