Variant report

Variant	rs55699767
Chromosome Location	chr3:61224636-61224637
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1880212	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2365491	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2365492	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28670997	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56268052	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs59910027	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6772523	0.81[AMR][1000 genomes]
rs6777895	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73098964	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73098998	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1000378	chr3:61103229-61238089	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv876868	chr3:61145050-61282503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv532626	chr3:61159646-61388418	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1008399	chr3:61176965-61461349	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61203400-61225600	Weak transcription	Lung	lung
2	chr3:61203400-61225600	Weak transcription	Pancreas	Pancrea
3	chr3:61208000-61225600	Weak transcription	Right Atrium	heart
4	chr3:61220000-61230000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:61220200-61225600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr3:61221000-61225600	Weak transcription	Right Ventricle	heart
7	chr3:61222400-61225600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:61222600-61224800	Weak transcription	Psoas Muscle	Psoas
9	chr3:61222600-61225600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:61222600-61225600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:61222600-61225600	Weak transcription	Left Ventricle	heart
12	chr3:61222600-61225600	Weak transcription	Spleen	Spleen
13	chr3:61222600-61225800	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:61222600-61225800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr3:61222600-61226600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:61222600-61228000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:61222600-61232800	Weak transcription	Brain Angular Gyrus	brain
18	chr3:61222800-61224800	Enhancers	GM12878-XiMat	blood
19	chr3:61223000-61225600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr3:61223200-61225000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:61223400-61226200	Enhancers	Brain Hippocampus Middle	brain
22	chr3:61223600-61225600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:61223600-61225600	Weak transcription	Ovary	ovary
24	chr3:61223800-61224800	Enhancers	Brain Cingulate Gyrus	brain
25	chr3:61223800-61228200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr3:61224000-61235200	Weak transcription	K562	blood
27	chr3:61224200-61224800	Enhancers	Brain Substantia Nigra	brain
28	chr3:61224200-61226600	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr3:61224600-61225000	Enhancers	Brain Anterior Caudate	brain
30	chr3:61224600-61226000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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