Variant report

Variant	rs6880746
Chromosome Location	chr5:167194368-167194369
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10070839	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10454965	0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10516038	0.84[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs11750131	0.84[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs12651802	0.80[ASN][1000 genomes]
rs12657288	0.94[ASN][1000 genomes]
rs13436455	0.83[JPT][hapmap]
rs1364369	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1364370	0.81[CEU][hapmap];0.89[EUR][1000 genomes]
rs2018599	0.81[ASN][1000 genomes]
rs2336972	0.96[ASN][1000 genomes]
rs2973664	0.95[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs4624810	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs6879227	0.80[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap]
rs7703401	0.90[CHB][hapmap];0.94[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	nsv932627	chr5:166744408-167290959	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1032559	chr5:167070888-167210684	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1027805	chr5:167082800-167285008	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167183400-167197200	Weak transcription	HSMMtube	muscle
2	chr5:167186800-167197200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr5:167190600-167195600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:167191600-167197400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:167192000-167195000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:167192000-167195400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr5:167192200-167194800	Weak transcription	Osteobl	bone
8	chr5:167192400-167194600	Weak transcription	NHDF-Ad	bronchial
9	chr5:167192600-167194800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr5:167192800-167194800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:167192800-167194800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr5:167192800-167197000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr5:167192800-167199400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr5:167193000-167196800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr5:167193000-167204400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

Quick Search:

Input of quick search could be:

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

what's new

Quick links