Variant report

Variant	rs2431364
Chromosome Location	chr5:75945477-75945478
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:75934487..75936821-chr5:75943605..75946585,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1423605	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2252231	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2431361	0.84[EUR][1000 genomes]
rs2431362	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2431363	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2431366	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2432186	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2432187	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2432188	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2432189	0.86[ASN][1000 genomes]
rs2455213	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2455215	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2455234	0.81[ASN][1000 genomes]
rs399058	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs429703	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs430389	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs456572	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs456708	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs457054	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs457182	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs457205	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs458573	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs458581	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs458661	0.90[ASN][1000 genomes]
rs460374	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs460431	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs460482	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs460562	0.84[ASN][1000 genomes]
rs461187	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs461273	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs461475	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs462587	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs463147	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs463973	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs465988	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs466393	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs615951	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	nsv1019669	chr5:75836365-76477788	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1031881	chr5:75917033-75946265	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1017025	chr5:75926278-75946265	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1035135	chr5:75927027-76092058	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75882600-75969400	Weak transcription	Stomach Mucosa	stomach
2	chr5:75914200-75953800	Weak transcription	Colonic Mucosa	Colon
3	chr5:75919200-75955400	Weak transcription	Fetal Kidney	kidney
4	chr5:75943000-75945600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
5	chr5:75943200-75946000	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
6	chr5:75943400-75946000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr5:75943400-75946000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr5:75943400-75946200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:75943400-75946200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
10	chr5:75943600-75945600	ZNF genes & repeats	Liver	Liver
11	chr5:75943600-75946000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
12	chr5:75943600-75946000	ZNF genes & repeats	Primary B cells from cord blood	blood
13	chr5:75943600-75946000	ZNF genes & repeats	Placenta	Placenta
14	chr5:75943600-75946000	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
15	chr5:75943600-75946200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
16	chr5:75943600-75946200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
17	chr5:75943600-75947000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr5:75943800-75946000	ZNF genes & repeats	Primary T cells from cord blood	blood
19	chr5:75943800-75946000	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
20	chr5:75943800-75946200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr5:75943800-75986600	Weak transcription	Gastric	stomach
22	chr5:75944000-75946000	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
23	chr5:75944000-75946000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
24	chr5:75944000-75946200	Strong transcription	Rectal Mucosa Donor 31	rectum
25	chr5:75944400-75946000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr5:75944400-75946200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
27	chr5:75944400-75949800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr5:75944800-75948400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr5:75945000-75946000	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
30	chr5:75945000-75946000	ZNF genes & repeats	Fetal Stomach	stomach
31	chr5:75945000-75946200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
32	chr5:75945000-75946200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
33	chr5:75945000-75949600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr5:75945000-75950600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr5:75945200-75946000	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr5:75945200-75946000	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr5:75945200-75946000	ZNF genes & repeats	Fetal Intestine Small	intestine
38	chr5:75945200-75948000	Weak transcription	HepG2	liver
39	chr5:75945200-75951000	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr5:75945200-75976200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr5:75945200-75976400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr5:75945200-76001000	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr5:75945400-75945600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
44	chr5:75945400-75945800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
45	chr5:75945400-75946000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr5:75945400-75946000	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr5:75945400-75946000	ZNF genes & repeats	Brain Hippocampus Middle	brain
48	chr5:75945400-75946000	ZNF genes & repeats	Pancreas	Pancrea
49	chr5:75945400-75946000	ZNF genes & repeats	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links