Variant report

Variant	rs2879636
Chromosome Location	chr3:179600490-179600491
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12696482	0.87[ASN][1000 genomes]
rs1567622	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1567624	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1609981	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1819122	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1973797	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1985273	0.94[AMR][1000 genomes]
rs2037633	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2177591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2287224	0.90[ASN][1000 genomes]
rs3774253	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3821798	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4146790	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4854954	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6443675	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784136	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7616210	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634271	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7650575	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9836550	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9862706	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]

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	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats 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:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179533800-179605000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:179564200-179606000	Strong transcription	Dnd41	blood
3	chr3:179595800-179605800	Weak transcription	Pancreas	Pancrea
4	chr3:179598200-179600600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:179598400-179600600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:179598400-179601000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:179598400-179601200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:179598600-179600600	Enhancers	Brain Cingulate Gyrus	brain
9	chr3:179598600-179601200	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr3:179598800-179601000	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr3:179598800-179601000	Enhancers	Brain Substantia Nigra	brain
12	chr3:179598800-179601200	Enhancers	H1 Cell Line	embryonic stem cell
13	chr3:179598800-179601200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:179598800-179601200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr3:179598800-179603600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:179599000-179601000	Enhancers	Fetal Lung	lung
17	chr3:179599200-179601200	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr3:179599400-179600800	Enhancers	Brain Anterior Caudate	brain
19	chr3:179599400-179601200	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr3:179599600-179601000	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr3:179599800-179600600	Enhancers	Fetal Brain Female	brain
22	chr3:179599800-179600800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:179600200-179600800	Enhancers	Fetal Muscle Leg	muscle
24	chr3:179600200-179601000	Enhancers	H9 Cell Line	embryonic stem cell
25	chr3:179600200-179601000	Flanking Active TSS	GM12878-XiMat	blood
26	chr3:179600200-179601200	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr3:179600400-179601000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
28	chr3:179600400-179601200	Enhancers	Brain Hippocampus Middle	brain
29	chr3:179600400-179601400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:179600400-179603400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:179600400-179610600	Weak transcription	Brain Angular Gyrus	brain

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