Variant report

Variant	rs8030006
Chromosome Location	chr15:59545833-59545834
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11855088	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12437559	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12437571	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12439560	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12441621	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12593382	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12595677	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12912088	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12917076	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17236495	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17236502	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17302240	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17302247	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2306783	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2306784	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2414624	0.82[AMR][1000 genomes]
rs28368974	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34310505	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34540528	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34827755	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3794489	0.81[AMR][1000 genomes]
rs4074433	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4074434	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4077169	0.89[AMR][1000 genomes]
rs4287498	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4420472	0.89[AMR][1000 genomes]
rs4482215	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4597251	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4775137	0.89[AMR][1000 genomes]
rs56752228	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6494081	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6494091	0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs67037466	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67599725	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs68078916	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs68084852	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7166002	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7180541	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72625730	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72746841	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv833027	chr15:59474806-59608544	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv904272	chr15:59500577-59549018	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv904273	chr15:59518488-59567137	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59511400-59549200	Weak transcription	Colonic Mucosa	Colon
2	chr15:59515800-59566600	Weak transcription	Pancreas	Pancrea
3	chr15:59517600-59546400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr15:59517800-59564200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr15:59521600-59566400	Weak transcription	Psoas Muscle	Psoas
6	chr15:59524000-59546200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr15:59524600-59569200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:59524600-59574600	Weak transcription	Lung	lung
9	chr15:59525000-59546400	Weak transcription	Stomach Smooth Muscle	stomach
10	chr15:59525200-59547800	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:59525200-59554000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr15:59525200-59566600	Weak transcription	Small Intestine	intestine
13	chr15:59525200-59582000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr15:59529200-59547200	Weak transcription	Aorta	Aorta
15	chr15:59529200-59547800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr15:59530200-59548000	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:59530600-59558200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr15:59530600-59568000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr15:59530800-59549400	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr15:59530800-59569000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:59533400-59559800	Weak transcription	NHLF	lung
22	chr15:59533400-59564000	Weak transcription	Ovary	ovary
23	chr15:59533400-59566800	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr15:59534400-59547800	Genic enhancers	A549	lung
25	chr15:59536000-59547800	Genic enhancers	Hela-S3	cervix
26	chr15:59536200-59548000	Weak transcription	Stomach Mucosa	stomach
27	chr15:59536600-59559000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr15:59537000-59547800	Weak transcription	HSMMtube	muscle
29	chr15:59539200-59546400	Weak transcription	NH-A	brain
30	chr15:59539200-59546600	Weak transcription	HMEC	breast
31	chr15:59540000-59551200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr15:59540000-59560000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr15:59540000-59568800	Weak transcription	Fetal Kidney	kidney
34	chr15:59540200-59548000	Weak transcription	Fetal Heart	heart
35	chr15:59540200-59549400	Weak transcription	HUVEC	blood vessel
36	chr15:59540400-59552600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr15:59540600-59561400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr15:59541000-59554000	Weak transcription	Right Ventricle	heart
39	chr15:59541000-59558000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr15:59541200-59549400	Weak transcription	Adipose Nuclei	Adipose
41	chr15:59541200-59566400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr15:59542000-59548400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:59542200-59550600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr15:59542400-59547400	Weak transcription	Placenta	Placenta
45	chr15:59542400-59547800	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr15:59542400-59551600	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr15:59542400-59568200	Weak transcription	Gastric	stomach
48	chr15:59542600-59546400	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr15:59542600-59547200	Weak transcription	Fetal Stomach	stomach
50	chr15:59542600-59547800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links