Variant report

Variant	rs2909085
Chromosome Location	chr19:38173298-38173299
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10402671	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10403173	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10408619	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10409605	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10412510	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10417576	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10420268	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10420552	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11673023	0.82[ASN][1000 genomes]
rs12459015	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1291	0.87[ASN][1000 genomes]
rs12974225	0.84[ASN][1000 genomes]
rs12979640	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13744	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1531549	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs16958861	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs16958863	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1974714	0.89[ASN][1000 genomes]
rs1975937	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1975939	0.82[AMR][1000 genomes]
rs2075284	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2287229	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2385119	0.80[ASN][1000 genomes]
rs241932	0.82[ASN][1000 genomes]
rs241950	0.81[ASN][1000 genomes]
rs28512414	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2909088	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2909093	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2909098	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2909100	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2909102	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2909105	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2909109	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2927739	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2927740	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2927742	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2927746	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2927747	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2972430	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2972434	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2972437	0.85[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2972438	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2972439	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2972445	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2972446	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2972447	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2972448	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2972452	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2972458	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3095724	0.82[ASN][1000 genomes]
rs3095726	0.87[ASN][1000 genomes]
rs3101746	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3101747	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3112433	0.95[ASN][1000 genomes]
rs3112434	0.92[ASN][1000 genomes]
rs35863684	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3829688	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4802024	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4802029	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4803231	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4803233	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4803262	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4803263	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4803276	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4803287	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs56151076	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6508736	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8100646	0.87[ASN][1000 genomes]
rs8103633	0.87[ASN][1000 genomes]
rs8103647	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs8110865	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs8112706	0.82[ASN][1000 genomes]
rs856300	0.84[ASN][1000 genomes]
rs856304	0.81[ASN][1000 genomes]
rs9304568	0.84[ASN][1000 genomes]
rs954504	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs968073	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9749368	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9941475	0.82[AMR][1000 genomes];0.85[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:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38166600-38182600	Weak transcription	Right Ventricle	heart
2	chr19:38166800-38180000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr19:38169800-38182200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr19:38170400-38173600	Weak transcription	Fetal Lung	lung
5	chr19:38170400-38176600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr19:38170400-38177000	Weak transcription	Brain Anterior Caudate	brain
7	chr19:38170400-38177200	Weak transcription	Psoas Muscle	Psoas
8	chr19:38170400-38182200	Weak transcription	Brain Substantia Nigra	brain
9	chr19:38170600-38182200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr19:38170800-38182200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr19:38171400-38173400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr19:38171400-38173600	Weak transcription	Brain Hippocampus Middle	brain
13	chr19:38171400-38182200	Weak transcription	Brain Angular Gyrus	brain
14	chr19:38172000-38175400	ZNF genes & repeats	Fetal Brain Female	brain
15	chr19:38172200-38173600	Weak transcription	Ovary	ovary
16	chr19:38172200-38176400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr19:38172600-38173600	Weak transcription	Fetal Stomach	stomach
18	chr19:38172800-38173600	Weak transcription	Dnd41	blood
19	chr19:38172800-38177000	Weak transcription	Brain Germinal Matrix	brain
20	chr19:38172800-38182200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr19:38173000-38176600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr19:38173200-38174200	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain

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