Variant report

Variant	rs16824930
Chromosome Location	chr3:116166626-116166627
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10804523	0.95[CEU][hapmap]
rs1367772	0.90[CEU][hapmap]
rs1623237	0.95[CEU][hapmap]
rs1713005	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1731607	0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1795283	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1920064	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1920184	0.95[CEU][hapmap]
rs1920190	0.95[CEU][hapmap]
rs1920192	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2033406	0.94[CEU][hapmap]
rs34073129	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4831131	0.95[CEU][hapmap]
rs6783360	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9822445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9823782	0.95[CEU][hapmap]
rs9838639	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9869410	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9870357	0.95[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757886	chr3:116142130-116307542	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2759171	chr3:116142130-116307542	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr3:116164200-116169800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:116165000-116167200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr3:116165200-116166800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:116165200-116168400	Weak transcription	Fetal Brain Male	brain
5	chr3:116165200-116168600	Weak transcription	Fetal Lung	lung
6	chr3:116165400-116167000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:116165400-116167200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr3:116165400-116167200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:116165400-116168200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr3:116165400-116169400	Weak transcription	Brain Angular Gyrus	brain
11	chr3:116165600-116167200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:116165600-116167200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr3:116165600-116167200	Weak transcription	Brain Substantia Nigra	brain
14	chr3:116165600-116168200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr3:116165600-116168400	Weak transcription	Brain Anterior Caudate	brain
16	chr3:116165600-116168400	Weak transcription	Brain Hippocampus Middle	brain
17	chr3:116165600-116168800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:116165600-116171600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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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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