Variant report

Variant	rs12595271
Chromosome Location	chr15:41999258-41999259
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:41998731..42000633-chr15:42001430..42003781,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1043627	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1106934	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11070346	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11070349	0.95[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs11547012	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs11853665	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11858843	1.00[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs1197659	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1197662	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs1197668	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs1197687	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1197688	0.93[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1197689	0.95[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1197690	0.93[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1197770	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1197773	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1206842	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1209333	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12439771	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12440605	1.00[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs12591285	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12901742	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16971915	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1726915	0.86[ASN][1000 genomes]
rs1918312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1918313	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2077361	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2077543	0.94[CHB][hapmap];0.87[JPT][hapmap]
rs2241523	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs2412640	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2577949	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28671571	0.80[ASN][1000 genomes]
rs2925340	0.85[ASN][1000 genomes]
rs34769385	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35033220	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35359048	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3816533	0.86[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4072386	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs4923906	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4923907	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4923913	0.85[ASN][1000 genomes]
rs4923917	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs4924573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57814590	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7166139	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs7168489	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7173779	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs7174099	0.95[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs7175346	0.94[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs7177495	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8025614	0.82[JPT][hapmap]
rs9806709	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049514	chr15:41958482-42081210	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1048655	chr15:41978391-42049360	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41954600-42001000	Weak transcription	Colonic Mucosa	Colon
2	chr15:41962000-42001400	Weak transcription	Gastric	stomach
3	chr15:41962200-42001000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr15:41972400-42065200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:41972800-41999600	Weak transcription	Fetal Brain Female	brain
6	chr15:41983000-42001200	Weak transcription	Ovary	ovary
7	chr15:41983200-42002600	Weak transcription	Small Intestine	intestine
8	chr15:41984200-42034800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:41984400-42002800	Weak transcription	A549	lung
10	chr15:41984600-41999400	Weak transcription	Thymus	Thymus
11	chr15:41984600-41999800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:41984600-42000600	Weak transcription	Lung	lung
13	chr15:41984600-42001600	Weak transcription	Pancreas	Pancrea
14	chr15:41984800-41999400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:41984800-42000800	Weak transcription	Brain Hippocampus Middle	brain
16	chr15:41984800-42001200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr15:41984800-42001400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr15:41984800-42003000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr15:41987600-42001200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:41988600-42001200	Weak transcription	Stomach Smooth Muscle	stomach
21	chr15:41988600-42003000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:41988600-42003000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr15:41988800-42002200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr15:41988800-42003000	Weak transcription	Fetal Kidney	kidney
25	chr15:41989000-42003000	Weak transcription	Colon Smooth Muscle	Colon
26	chr15:41989000-42041600	Weak transcription	Fetal Brain Male	brain
27	chr15:41989200-41999400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr15:41989200-41999400	Weak transcription	Placenta	Placenta
29	chr15:41989200-42000400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr15:41989200-42000800	Weak transcription	Psoas Muscle	Psoas
31	chr15:41989200-42000800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr15:41989200-42001000	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr15:41989200-42001000	Weak transcription	Brain Angular Gyrus	brain
34	chr15:41989200-42001000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr15:41989200-42001200	Weak transcription	Brain Anterior Caudate	brain
36	chr15:41989200-42001200	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr15:41989200-42001200	Weak transcription	Right Ventricle	heart
38	chr15:41989200-42001600	Weak transcription	HSMMtube	muscle
39	chr15:41989200-42003000	Weak transcription	Brain Substantia Nigra	brain
40	chr15:41989200-42005000	Weak transcription	Fetal Heart	heart
41	chr15:41989200-42009400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr15:41989400-41999400	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr15:41989400-41999800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr15:41989400-42000800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr15:41989400-42001000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr15:41989400-42002200	Weak transcription	NHDF-Ad	bronchial
47	chr15:41989400-42003200	Weak transcription	HUVEC	blood vessel
48	chr15:41990000-42001200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr15:41991000-42000000	Weak transcription	Osteobl	bone
50	chr15:41991400-42001000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links