Variant report

Variant	rs1975939
Chromosome Location	chr19:38053239-38053240
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10402671	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10403173	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10404031	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10406379	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10408619	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10409605	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10410588	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10412510	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10412786	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10417576	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10420268	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10420552	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10425795	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11083432	0.89[EUR][1000 genomes]
rs12459015	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12979640	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13744	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1531549	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1564206	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1564208	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16958861	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16958863	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1975937	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2075284	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2287229	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2291002	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28512414	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2909085	0.82[AMR][1000 genomes]
rs2909088	0.82[AMR][1000 genomes]
rs2909093	0.83[EUR][1000 genomes]
rs2909098	0.81[EUR][1000 genomes]
rs2909102	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2909105	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2909109	0.82[AMR][1000 genomes]
rs2927739	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2927740	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2927742	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2927746	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2927747	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2972430	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2972434	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2972446	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2972447	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2972448	0.82[AMR][1000 genomes]
rs2972452	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2972458	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3101746	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3101747	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3112434	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35863684	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3829688	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4802024	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4802029	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4803215	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4803231	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4803233	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4803262	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4803263	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4803276	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4803287	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6508736	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8100646	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8103647	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8110865	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9304568	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs954504	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs958305	0.86[EUR][1000 genomes]
rs968073	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9749368	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9797618	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9941475	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38032400-38080800	ZNF genes & repeats	Liver	Liver
2	chr19:38032600-38075200	ZNF genes & repeats	Adipose Nuclei	Adipose
3	chr19:38038000-38078400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr19:38038600-38079600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
5	chr19:38041200-38079600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr19:38041800-38059600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr19:38042800-38053800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr19:38045000-38078600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr19:38046400-38067200	ZNF genes & repeats	Brain Substantia Nigra	brain
10	chr19:38046400-38071800	ZNF genes & repeats	Brain Hippocampus Middle	brain
11	chr19:38046600-38053800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
12	chr19:38046600-38066800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
13	chr19:38046600-38079600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
14	chr19:38047000-38058600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
15	chr19:38047400-38054800	ZNF genes & repeats	Brain Angular Gyrus	brain
16	chr19:38047400-38067000	ZNF genes & repeats	Brain Anterior Caudate	brain
17	chr19:38047400-38078600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
18	chr19:38049200-38079600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
19	chr19:38050000-38057400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr19:38050200-38055400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr19:38051200-38054200	ZNF genes & repeats	Ovary	ovary
22	chr19:38051200-38054200	ZNF genes & repeats	Small Intestine	intestine
23	chr19:38051400-38058800	ZNF genes & repeats	Fetal Lung	lung
24	chr19:38051400-38059600	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr19:38051400-38059800	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
26	chr19:38051400-38066800	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
27	chr19:38051600-38053800	ZNF genes & repeats	Fetal Kidney	kidney
28	chr19:38051600-38058200	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
29	chr19:38051600-38061600	ZNF genes & repeats	Colon Smooth Muscle	Colon
30	chr19:38051600-38077600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
31	chr19:38051600-38078800	ZNF genes & repeats	Fetal Brain Female	brain
32	chr19:38052000-38053600	ZNF genes & repeats	Primary T cells from cord blood	blood
33	chr19:38052000-38057800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
34	chr19:38052000-38061800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
35	chr19:38052000-38067000	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
36	chr19:38052000-38067200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
37	chr19:38052200-38054200	ZNF genes & repeats	Psoas Muscle	Psoas
38	chr19:38052200-38058200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
39	chr19:38052200-38061600	ZNF genes & repeats	Dnd41	blood
40	chr19:38052200-38067000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr19:38052200-38075200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
42	chr19:38052200-38078600	ZNF genes & repeats	Primary B cells from cord blood	blood
43	chr19:38052400-38058600	ZNF genes & repeats	Brain Cingulate Gyrus	brain
44	chr19:38052400-38059800	ZNF genes & repeats	Stomach Smooth Muscle	stomach
45	chr19:38052400-38061400	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
46	chr19:38052600-38054400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr19:38052600-38057200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr19:38053000-38053600	ZNF genes & repeats	Rectal Smooth Muscle	rectum
49	chr19:38053000-38054400	ZNF genes & repeats	Aorta	Aorta
50	chr19:38053000-38054400	ZNF genes & repeats	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links