Variant report

Variant	rs6785558
Chromosome Location	chr3:51198854-51198855
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10212240	0.84[ASN][1000 genomes]
rs10212250	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11130274	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11130282	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11712871	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12630889	0.84[ASN][1000 genomes]
rs2355934	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28670710	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4130474	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4244697	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4267674	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4289378	0.84[ASN][1000 genomes]
rs4293735	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4301044	0.81[ASN][1000 genomes]
rs4308313	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4328835	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4340738	0.81[ASN][1000 genomes]
rs4359843	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4367101	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4378999	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4422345	0.84[ASN][1000 genomes]
rs4453876	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4528983	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4532165	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4549311	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4568176	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4568177	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4927957	0.81[ASN][1000 genomes]
rs4927958	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4927959	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4927964	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4927965	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4927967	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4927971	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4927972	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6445393	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6445455	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6445551	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6446167	0.82[AMR][1000 genomes]
rs6446168	0.82[AMR][1000 genomes]
rs6763136	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6769957	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6772664	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6775483	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6777719	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6779658	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6797368	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6803672	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6809080	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7614785	0.84[ASN][1000 genomes]
rs7619584	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7628533	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7630616	0.84[ASN][1000 genomes]
rs7630730	0.84[ASN][1000 genomes]
rs7644957	0.81[ASN][1000 genomes]
rs9839860	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9841339	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9858412	0.81[ASN][1000 genomes]
rs9864574	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9867256	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9869123	0.81[ASN][1000 genomes]
rs9871539	0.82[AMR][1000 genomes];0.84[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	nsv491647	chr3:50856276-51245158	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51168200-51210600	Weak transcription	Brain Angular Gyrus	brain
2	chr3:51183000-51209600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr3:51183400-51206800	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:51188800-51210600	Weak transcription	Brain Anterior Caudate	brain
5	chr3:51189600-51206800	Weak transcription	Fetal Brain Female	brain
6	chr3:51190400-51205800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:51190800-51203200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:51192600-51208800	Weak transcription	Brain Germinal Matrix	brain
9	chr3:51193200-51209800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:51193600-51209800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:51195200-51210000	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr3:51196000-51207400	Weak transcription	Fetal Brain Male	brain
13	chr3:51196000-51209800	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:51196600-51210400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:51197400-51201200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr3:51197400-51210600	Weak transcription	Left Ventricle	heart
17	chr3:51197600-51200400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:51197600-51210600	Weak transcription	Stomach Smooth Muscle	stomach
19	chr3:51197800-51200800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr3:51197800-51210000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:51198200-51199000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:51198200-51210000	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr3:51198200-51210600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr3:51198400-51210600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:51198600-51210600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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