Variant report

Variant	rs3772657
Chromosome Location	chr3:134658654-134658655
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10935143	1.00[JPT][hapmap]
rs12496766	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1870196	0.95[CEU][hapmap];0.85[CHB][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3772658	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4955460	0.85[CEU][hapmap]
rs6776308	0.82[CEU][hapmap]
rs6782004	0.81[CEU][hapmap]
rs6789372	0.90[CEU][hapmap];0.85[CHB][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6799875	0.91[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs6801218	1.00[JPT][hapmap]
rs9818859	0.85[CEU][hapmap]
rs9829521	0.93[EUR][1000 genomes]
rs9837866	0.92[EUR][1000 genomes]
rs9859276	0.93[EUR][1000 genomes]
rs9866157	0.92[EUR][1000 genomes]
rs9874260	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]

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	nsv1009634	chr3:134543259-134820208	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536720	chr3:134543259-134820208	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134650600-134660600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:134653800-134659000	Enhancers	Brain Germinal Matrix	brain
3	chr3:134654800-134658800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:134655000-134659400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:134656600-134673000	Weak transcription	GM12878-XiMat	blood
6	chr3:134657400-134658800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:134657600-134659400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:134657800-134660800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:134658000-134659200	Enhancers	Brain Anterior Caudate	brain
10	chr3:134658000-134659600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
11	chr3:134658200-134659200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:134658200-134659600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:134658200-134669000	Weak transcription	Fetal Brain Female	brain
14	chr3:134658400-134658800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
15	chr3:134658600-134658800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:134658600-134659200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:134658600-134660600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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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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