Variant report

Variant	rs1738072
Chromosome Location	chr6:72175998-72175999
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1738070	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4141421	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs503993	0.81[EUR][1000 genomes]
rs504983	0.81[EUR][1000 genomes]
rs701698	0.95[ASN][1000 genomes]
rs701699	0.95[ASN][1000 genomes]
rs852922	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs852925	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852928	0.95[ASN][1000 genomes]
rs852929	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852930	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852961	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs852965	0.81[ASN][1000 genomes]
rs852966	0.85[CHD][hapmap];0.83[JPT][hapmap]
rs852971	0.94[EUR][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	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases
2	nsv1025409	chr6:72175998-72205044	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1738072	LMBRD1	cis	cerebellum	SCAN
rs1738072	BAI3	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72174000-72176400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:72175600-72176000	Enhancers	NHEK	skin
3	chr6:72175600-72176600	Enhancers	HMEC	breast
4	chr6:72175800-72176000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
5	chr6:72175800-72176200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:72175800-72176600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:72175800-72176600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:72175800-72177600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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