Variant report

Variant	rs6801461
Chromosome Location	chr3:142871062-142871063
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10513192	1.00[JPT][hapmap]
rs10935483	1.00[JPT][hapmap]
rs12489438	1.00[JPT][hapmap]
rs1449866	0.99[ASN][1000 genomes]
rs1449867	0.82[GIH][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap]
rs1530266	0.84[GIH][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap]
rs1597390	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4683758	0.84[GIH][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap]
rs58177797	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6440148	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67894485	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs727931	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622806	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7649342	0.84[GIH][hapmap];0.85[MEX][hapmap];0.86[TSI][hapmap]
rs9813711	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813788	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757893	chr3:142720230-142962932	Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2759183	chr3:142720230-142964373	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1007164	chr3:142837004-142891719	Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv508250	chr3:142842454-142943722	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142853600-142873000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:142866400-142876400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:142867800-142871200	Enhancers	Fetal Lung	lung
4	chr3:142869400-142871200	Enhancers	Adipose Nuclei	Adipose
5	chr3:142869400-142871200	Enhancers	Fetal Stomach	stomach
6	chr3:142869400-142871200	Enhancers	Left Ventricle	heart
7	chr3:142869800-142876600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:142870000-142871200	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr3:142870000-142871800	Enhancers	Fetal Muscle Leg	muscle
10	chr3:142870200-142871200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:142870200-142871200	Enhancers	Fetal Thymus	thymus
12	chr3:142870600-142871200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:142870600-142871800	Enhancers	Fetal Muscle Trunk	muscle
14	chr3:142870600-142873000	Enhancers	Primary T cells from cord blood	blood
15	chr3:142870600-142873200	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr3:142870800-142871800	Enhancers	Primary T cells fromperipheralblood	blood
17	chr3:142871000-142873400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr3:142871000-142877000	Weak transcription	Dnd41	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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