Variant report

Variant	rs11625087
Chromosome Location	chr14:33105141-33105142
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	chr14:33104661..33106240-chr14:33107373..33109760,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10130459	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10135053	0.82[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10138218	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10141225	0.81[CEU][hapmap]
rs1033678	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12717222	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12896132	0.88[CHB][hapmap];0.93[GIH][hapmap];0.81[ASN][1000 genomes]
rs1884618	0.94[ASN][1000 genomes]
rs1956203	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1956219	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3784203	0.89[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4981992	0.82[CEU][hapmap];0.93[GIH][hapmap]
rs4981993	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4981995	0.88[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6571540	0.81[CEU][hapmap];0.86[GIH][hapmap]
rs6571547	1.00[CHB][hapmap];0.89[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6571548	1.00[CHB][hapmap];0.93[GIH][hapmap];0.92[ASN][1000 genomes]
rs7146517	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7152044	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7153048	0.89[CHB][hapmap];0.93[GIH][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs7154753	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7156763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7157328	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7157533	0.92[CEU][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7157744	0.92[CEU][hapmap];0.97[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7160156	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.84[TSI][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs927060	1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[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	nsv1045035	chr14:32986003-33543227	Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv542021	chr14:32986003-33543227	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv428624	chr14:33065571-33214223	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11625087	NUBPL	cis	parietal	SCAN
rs11625087	C19orf56	trans	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:33096800-33105400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:33099200-33120400	Weak transcription	Fetal Muscle Leg	muscle
3	chr14:33101800-33107600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr14:33102400-33105400	Enhancers	NHDF-Ad	bronchial
5	chr14:33102600-33107800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr14:33102800-33107000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr14:33103200-33106800	Weak transcription	Left Ventricle	heart
8	chr14:33103200-33107800	Enhancers	Fetal Heart	heart
9	chr14:33103200-33114600	Weak transcription	Aorta	Aorta
10	chr14:33104200-33105800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr14:33104200-33106200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr14:33104400-33105200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr14:33104400-33105200	Active TSS	Pancreatic Islets	Pancreatic Islet
14	chr14:33104600-33120400	Weak transcription	HSMMtube	muscle
15	chr14:33104800-33105200	Flanking Active TSS	Liver	Liver
16	chr14:33104800-33105200	Enhancers	Brain Anterior Caudate	brain
17	chr14:33104800-33105200	Enhancers	Brain Hippocampus Middle	brain
18	chr14:33104800-33105400	Enhancers	Brain Germinal Matrix	brain
19	chr14:33104800-33105800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr14:33104800-33106000	Weak transcription	Right Atrium	heart
21	chr14:33104800-33107000	Weak transcription	NH-A	brain
22	chr14:33104800-33107200	Weak transcription	Osteobl	bone
23	chr14:33104800-33116400	Weak transcription	Brain Substantia Nigra	brain
24	chr14:33105000-33105200	Enhancers	Brain Angular Gyrus	brain
25	chr14:33105000-33106800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr14:33105000-33117000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr14:33105000-33117200	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links