Variant report

Variant	rs12459546
Chromosome Location	chr19:37379636-37379637
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10402227	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10403877	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10410788	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10419685	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10424415	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10426077	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10426229	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1114318	0.96[ASN][1000 genomes]
rs11878527	1.00[EUR][1000 genomes]
rs12460098	1.00[JPT][hapmap]
rs12461501	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12462151	0.92[ASN][1000 genomes]
rs12462400	0.81[ASN][1000 genomes]
rs12463214	0.92[ASN][1000 genomes]
rs16960966	0.92[ASN][1000 genomes]
rs16971769	0.92[ASN][1000 genomes]
rs16989369	0.92[ASN][1000 genomes]
rs17721244	0.92[ASN][1000 genomes]
rs17842485	0.92[ASN][1000 genomes]
rs2080821	1.00[EUR][1000 genomes]
rs2305266	0.92[ASN][1000 genomes]
rs2309220	0.81[EUR][1000 genomes]
rs28635726	0.91[AFR][1000 genomes]
rs487318	1.00[EUR][1000 genomes]
rs491951	1.00[EUR][1000 genomes]
rs500244	1.00[EUR][1000 genomes]
rs500370	1.00[EUR][1000 genomes]
rs510834	1.00[EUR][1000 genomes]
rs519455	1.00[EUR][1000 genomes]
rs526426	1.00[EUR][1000 genomes]
rs529944	1.00[EUR][1000 genomes]
rs535477	1.00[EUR][1000 genomes]
rs547831	1.00[EUR][1000 genomes]
rs562480	1.00[EUR][1000 genomes]
rs56286503	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56838197	1.00[EUR][1000 genomes]
rs57427270	0.81[EUR][1000 genomes]
rs57904468	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs579731	1.00[EUR][1000 genomes]
rs59122318	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7252518	0.81[EUR][1000 genomes]
rs7254717	0.81[EUR][1000 genomes]
rs73612926	0.81[EUR][1000 genomes]
rs73626751	1.00[EUR][1000 genomes]
rs73930869	1.00[EUR][1000 genomes]
rs8105472	0.81[EUR][1000 genomes]
rs826272	1.00[EUR][1000 genomes]
rs9304876	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9304877	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv521605	chr19:37261810-37483444	ZNF genes & repeats Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv1060155	chr19:37274915-37458788	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv544000	chr19:37274915-37458788	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	esv3507199	chr19:37284708-37805639	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
10	esv3507200	chr19:37284708-37805639	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
11	esv3497360	chr19:37290273-37745365	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
12	esv3497361	chr19:37290273-37745365	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers 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 target site	25 gene(s)	inside rSNPs	diseases
13	nsv911651	chr19:37300554-37428465	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
14	nsv458568	chr19:37325826-37747108	Strong transcription ZNF genes & repeats Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
15	nsv579461	chr19:37325826-37747108	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
16	nsv458569	chr19:37331614-37412887	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
17	nsv579462	chr19:37331614-37412887	Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
18	nsv523848	chr19:37357289-37487632	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37344400-37406400	ZNF genes & repeats	Liver	Liver
2	chr19:37346400-37404600	ZNF genes & repeats	Adipose Nuclei	Adipose
3	chr19:37353400-37405000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr19:37369400-37380800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr19:37373800-37403400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
6	chr19:37374000-37400400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr19:37374000-37405400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr19:37374200-37390400	ZNF genes & repeats	Brain Cingulate Gyrus	brain
9	chr19:37374200-37404200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
10	chr19:37374400-37395000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr19:37374400-37395800	ZNF genes & repeats	Brain Germinal Matrix	brain
12	chr19:37374400-37400400	ZNF genes & repeats	Fetal Brain Female	brain
13	chr19:37374400-37406400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr19:37374600-37400400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr19:37375000-37386600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
16	chr19:37375000-37397200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr19:37375200-37390200	ZNF genes & repeats	Brain Hippocampus Middle	brain
18	chr19:37375200-37390600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
19	chr19:37375200-37393400	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr19:37375800-37380600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr19:37377400-37381000	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr19:37378000-37390000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr19:37378600-37379800	Weak transcription	Fetal Kidney	kidney
24	chr19:37379200-37386400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
25	chr19:37379200-37390200	ZNF genes & repeats	Fetal Brain Male	brain
26	chr19:37379400-37390200	ZNF genes & repeats	Brain Anterior Caudate	brain
27	chr19:37379400-37390200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
28	chr19:37379400-37390400	ZNF genes & repeats	Fetal Lung	lung
29	chr19:37379400-37400400	ZNF genes & repeats	Primary T cells from cord blood	blood
30	chr19:37379600-37380000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr19:37379600-37380000	ZNF genes & repeats	Left Ventricle	heart
32	chr19:37379600-37380000	ZNF genes & repeats	Pancreas	Pancrea
33	chr19:37379600-37380200	ZNF genes & repeats	Placenta	Placenta
34	chr19:37379600-37386400	ZNF genes & repeats	Aorta	Aorta
35	chr19:37379600-37390200	ZNF genes & repeats	Brain Substantia Nigra	brain
36	chr19:37379600-37392800	ZNF genes & repeats	Fetal Muscle Trunk	muscle
37	chr19:37379600-37399600	ZNF genes & repeats	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links