Variant report

Variant	rs10164941
Chromosome Location	chr2:99703524-99703525
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10167390	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11903311	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12470471	0.82[ASN][1000 genomes]
rs12619780	0.81[ASN][1000 genomes]
rs1453563	0.80[ASN][1000 genomes]
rs1563106	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1563107	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1563108	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17708262	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28648058	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6737257	0.80[ASN][1000 genomes]
rs6753650	0.81[ASN][1000 genomes]
rs6754843	0.81[ASN][1000 genomes]
rs720229	0.82[ASN][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:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10164941	TSGA10	cis	Thyroid	GTEx
rs10164941	TSGA10	cis	Skin Sun Exposed Lower leg	GTEx
rs10164941	LIPT1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99700400-99707400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:99702600-99703800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr2:99703000-99706600	Enhancers	Dnd41	blood
4	chr2:99703400-99717800	Weak transcription	Brain Cingulate Gyrus	brain

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