Variant report

Variant	rs59802755
Chromosome Location	chr2:73329535-73329536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:73320586..73325143-chr2:73325606..73330308,7	K562	blood:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1046183	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13404068	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2421099	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56931614	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56992198	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57875548	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs58469852	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs58617186	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58649746	0.90[ASN][1000 genomes]
rs58659495	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59108557	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60341789	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61061024	0.88[EUR][1000 genomes]
rs61652727	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62147727	0.81[AFR][1000 genomes]
rs62147756	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs66570372	0.81[AMR][1000 genomes]
rs6716846	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs67421457	0.86[AMR][1000 genomes];0.94[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	nsv1002295	chr2:73216155-73350391	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1006801	chr2:73305056-73431711	Weak transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:73315600-73330400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr2:73315600-73338000	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr2:73316200-73330400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr2:73316200-73338400	Weak transcription	Brain Germinal Matrix	brain
5	chr2:73316400-73334400	Weak transcription	Fetal Brain Female	brain
6	chr2:73316400-73335000	Weak transcription	Brain Substantia Nigra	brain
7	chr2:73318400-73331800	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:73318600-73334400	Weak transcription	HMEC	breast
9	chr2:73319400-73330000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr2:73320200-73332200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr2:73320600-73332800	Weak transcription	Esophagus	oesophagus
12	chr2:73320800-73329600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr2:73320800-73332800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr2:73320800-73334400	Weak transcription	Aorta	Aorta
15	chr2:73321000-73330200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr2:73321600-73332800	Weak transcription	Fetal Muscle Leg	muscle
17	chr2:73321800-73330000	Weak transcription	Right Atrium	heart
18	chr2:73321800-73330200	Weak transcription	Left Ventricle	heart
19	chr2:73322400-73330200	Weak transcription	Pancreas	Pancrea
20	chr2:73322400-73334600	Weak transcription	Psoas Muscle	Psoas
21	chr2:73323000-73330400	Weak transcription	Brain Angular Gyrus	brain
22	chr2:73324600-73330400	Weak transcription	Ovary	ovary
23	chr2:73326600-73329600	Strong transcription	Gastric	stomach
24	chr2:73326800-73332000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr2:73327000-73330000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr2:73327000-73334400	Strong transcription	Fetal Stomach	stomach
27	chr2:73327000-73338800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:73327400-73329600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr2:73327400-73330200	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr2:73327600-73329600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr2:73328200-73330000	Enhancers	Placenta	Placenta
32	chr2:73328200-73330400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr2:73328200-73332800	Enhancers	Spleen	Spleen
34	chr2:73328400-73330200	Strong transcription	Fetal Intestine Small	intestine
35	chr2:73328600-73329800	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr2:73328600-73330000	Enhancers	HSMM	muscle
37	chr2:73328600-73330200	Enhancers	H1 Cell Line	embryonic stem cell
38	chr2:73328600-73330200	Enhancers	H9 Cell Line	embryonic stem cell
39	chr2:73328600-73330400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr2:73328600-73330600	Enhancers	Muscle Satellite Cultured Cells	--
41	chr2:73328600-73330800	Enhancers	NH-A	brain
42	chr2:73328600-73330800	Enhancers	Osteobl	bone
43	chr2:73328800-73329600	Enhancers	Lung	lung
44	chr2:73328800-73329800	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr2:73328800-73329800	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr2:73328800-73329800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr2:73328800-73330200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
48	chr2:73328800-73330200	Enhancers	Brain Anterior Caudate	brain
49	chr2:73328800-73330600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr2:73328800-73330600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links