Variant report

Variant	rs10179910
Chromosome Location	chr2:99658503-99658504
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10170063	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1115756	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1115757	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12470471	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13407840	0.82[EUR][1000 genomes]
rs1453564	0.82[EUR][1000 genomes]
rs17708262	0.84[EUR][1000 genomes]
rs2084988	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28648058	0.84[EUR][1000 genomes]
rs4851183	0.82[EUR][1000 genomes]
rs62154638	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6542846	0.82[EUR][1000 genomes]
rs6722164	0.80[EUR][1000 genomes]
rs6724476	0.82[EUR][1000 genomes]
rs6735801	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6737257	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6740054	0.82[EUR][1000 genomes]
rs6754843	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7570657	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7571390	0.82[EUR][1000 genomes]
rs7591794	0.82[EUR][1000 genomes]
rs7605734	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7606635	0.84[AMR][1000 genomes];0.82[EUR][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	nsv834310	chr2:99533832-99709999	Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
2	nsv1007718	chr2:99542281-99729107	Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription 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 lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10179910	TSGA10	Cis_1M	lymphoblastoid	RTeQTL
rs10179910	LIPT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99627600-99658800	Weak transcription	Pancreas	Pancrea
2	chr2:99656800-99660000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr2:99658200-99660400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:99658200-99660400	Weak transcription	Adipose Nuclei	Adipose

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