Variant report

Variant	rs4490310
Chromosome Location	chr3:28904498-28904499
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11320372	0.87[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs11717153	0.84[EUR][1000 genomes]
rs1353923	0.83[EUR][1000 genomes]
rs1353928	0.83[EUR][1000 genomes]
rs1353929	0.82[EUR][1000 genomes]
rs1353930	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1392299	0.83[EUR][1000 genomes]
rs1392302	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1500008	0.83[EUR][1000 genomes]
rs1500009	0.83[EUR][1000 genomes]
rs1500013	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17654965	0.83[EUR][1000 genomes]
rs1875128	0.86[EUR][1000 genomes]
rs1909600	0.82[EUR][1000 genomes]
rs2201985	0.83[EUR][1000 genomes]
rs2221154	0.82[EUR][1000 genomes]
rs3856683	0.80[EUR][1000 genomes]
rs4270468	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6549894	0.85[EUR][1000 genomes]
rs6549897	0.81[EUR][1000 genomes]
rs6773079	0.80[EUR][1000 genomes]
rs7616032	0.92[EUR][1000 genomes]
rs7619942	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7626502	0.87[EUR][1000 genomes]
rs7637007	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9816337	0.86[EUR][1000 genomes]
rs9820080	0.86[EUR][1000 genomes]
rs9833538	0.84[EUR][1000 genomes]
rs9837208	0.83[EUR][1000 genomes]
rs9859416	0.87[EUR][1000 genomes]
rs9862610	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv590011	chr3:28780713-29044437	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv876652	chr3:28811329-28947691	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv876653	chr3:28819123-29366164	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv876654	chr3:28882980-29105082	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 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	chr3:28902600-28904600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr3:28902600-28904600	Weak transcription	HSMM	muscle
3	chr3:28902800-28904600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:28903000-28916600	Weak transcription	Psoas Muscle	Psoas
5	chr3:28903800-28904600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:28903800-28904600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr3:28903800-28904800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:28903800-28904800	Weak transcription	HSMMtube	muscle
9	chr3:28903800-28909200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:28903800-28928200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:28904000-28909200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:28904400-28905400	Enhancers	Fetal Brain Female	brain

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