Variant report

Variant	rs6805142
Chromosome Location	chr3:112028757-112028758
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12106673	0.84[EUR][1000 genomes]
rs12106967	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13069751	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13069935	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13070091	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13092081	0.93[EUR][1000 genomes]
rs13095299	0.91[EUR][1000 genomes]
rs1317243	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1879513	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1879514	0.94[ASN][1000 genomes]
rs2399412	0.93[EUR][1000 genomes]
rs4682101	0.91[ASN][1000 genomes]
rs4682398	0.91[EUR][1000 genomes]
rs4682399	0.93[EUR][1000 genomes]
rs6438064	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6438065	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6762106	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6773206	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6780745	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6787547	0.94[ASN][1000 genomes]
rs6798354	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6798486	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6805117	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6808365	0.97[ASN][1000 genomes]
rs8179893	0.93[EUR][1000 genomes]
rs8179913	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9755930	0.97[ASN][1000 genomes]
rs9814721	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9823309	0.97[ASN][1000 genomes]
rs9852176	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9856838	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9876973	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv3949	chr3:111998512-112044060	Enhancers Weak transcription Active TSS 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	4 gene(s)	inside rSNPs	diseases
3	esv3336356	chr3:112027218-112031669	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112024000-112028800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:112025200-112034600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:112027400-112029800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:112027400-112031400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:112027400-112032800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:112027600-112030800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr3:112027600-112032800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:112027600-112033000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:112028600-112030000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:112028600-112034000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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