Variant report

Variant	rs62119309
Chromosome Location	chr19:52994976-52994977
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10409896	0.85[AMR][1000 genomes]
rs10410156	0.85[AMR][1000 genomes]
rs10410820	0.85[AMR][1000 genomes]
rs10412429	0.85[AMR][1000 genomes]
rs10418321	0.85[AMR][1000 genomes]
rs10418371	0.85[AMR][1000 genomes]
rs10418653	0.85[AMR][1000 genomes]
rs10422356	0.82[AMR][1000 genomes]
rs161929	0.80[AMR][1000 genomes]
rs1673891	0.80[AMR][1000 genomes]
rs1676148	0.80[AMR][1000 genomes]
rs1676149	0.80[AMR][1000 genomes]
rs2020411	0.84[AMR][1000 genomes]
rs2608490	0.80[AMR][1000 genomes]
rs2615577	0.80[AMR][1000 genomes]
rs2617799	0.80[AMR][1000 genomes]
rs28475269	0.85[AMR][1000 genomes]
rs28638217	0.83[AMR][1000 genomes]
rs28682272	0.82[AMR][1000 genomes]
rs324741	0.80[AMR][1000 genomes]
rs329939	0.82[AMR][1000 genomes]
rs367432	0.85[AMR][1000 genomes]
rs4455076	0.80[AMR][1000 genomes]
rs547548	0.80[AMR][1000 genomes]
rs608324	0.81[AMR][1000 genomes]
rs60946234	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs623683	0.83[AMR][1000 genomes]
rs635117	0.83[AMR][1000 genomes]
rs652226	0.83[AMR][1000 genomes]
rs707314	0.80[AMR][1000 genomes]
rs7246790	0.85[AMR][1000 genomes]
rs7247129	0.85[AMR][1000 genomes]
rs7247176	0.85[AMR][1000 genomes]
rs7247669	0.85[AMR][1000 genomes]
rs7254786	0.85[AMR][1000 genomes]
rs7256777	0.82[AMR][1000 genomes]
rs7258002	0.82[AMR][1000 genomes]
rs73583013	0.80[AMR][1000 genomes]
rs73583032	0.85[AMR][1000 genomes]
rs73583038	0.83[AMR][1000 genomes]
rs781125	0.82[AMR][1000 genomes]
rs802879	0.82[AMR][1000 genomes]
rs809103	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066537	chr19:52794424-53044977	Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS 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	24 gene(s)	inside rSNPs	diseases
2	nsv544060	chr19:52794424-53044977	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	esv2762048	chr19:52895166-52997571	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv580026	chr19:52937100-53059872	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1063648	chr19:52938131-53041119	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1057296	chr19:52950339-53396986	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv978841	chr19:52983057-53088237	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	esv3404701	chr19:52986895-53035152	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats 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	5 gene(s)	inside rSNPs	diseases
9	nsv1058567	chr19:52992455-53021505	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
10	esv3440535	chr19:52993529-53035203	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv1066717	chr19:52993620-53041995	Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52992600-52995400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr19:52993000-52995400	Weak transcription	Left Ventricle	heart
3	chr19:52993000-52995600	Weak transcription	Brain Germinal Matrix	brain
4	chr19:52994200-52997200	ZNF genes & repeats	Ovary	ovary
5	chr19:52994600-52996400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
6	chr19:52994600-52999400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr19:52994800-52995400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr19:52994800-52995800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr19:52994800-52996600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr19:52994800-52997000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
11	chr19:52994800-52997200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr19:52994800-52997600	ZNF genes & repeats	Fetal Stomach	stomach

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