Variant report

Variant	rs10852937
Chromosome Location	chr17:38129097-38129098
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1042657	0.86[CHB][hapmap]
rs12938879	0.84[ASN][1000 genomes]
rs2071369	0.86[CHB][hapmap]
rs2071370	0.86[CHB][hapmap]
rs2302775	0.92[CHD][hapmap]
rs2313641	0.80[AMR][1000 genomes]
rs3816471	0.82[ASN][1000 genomes]
rs3826330	0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs3859190	0.86[CHB][hapmap];0.82[CHD][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs3916061	0.94[ASN][1000 genomes]
rs3934886	0.81[GIH][hapmap]
rs4082190	0.93[ASN][1000 genomes]
rs4488488	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4795411	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs6503534	0.81[GIH][hapmap]
rs921651	0.90[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.90[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9748108	0.81[ASN][1000 genomes]
rs9903987	0.84[ASN][1000 genomes]
rs9905305	0.91[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	nsv492308	chr17:38033039-38204458	Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	esv1007042	chr17:38128988-38130022	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10852937	GSDM1	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38122200-38130600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr17:38122200-38130600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr17:38124000-38129600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr17:38124000-38134600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr17:38127400-38129200	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
6	chr17:38127800-38130200	Weak transcription	Placenta	Placenta
7	chr17:38128000-38129600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr17:38128000-38131400	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr17:38128400-38130400	Enhancers	Osteobl	bone
10	chr17:38128600-38129200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr17:38129000-38129800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr17:38129000-38130200	Weak transcription	Brain Hippocampus Middle	brain
13	chr17:38129000-38130400	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr17:38129000-38130600	Weak transcription	Primary B cells from cord blood	blood
15	chr17:38129000-38132200	Enhancers	K562	blood

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