Variant report

Variant	rs836791
Chromosome Location	chr5:79908518-79908519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1238951	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1643656	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1650660	0.89[EUR][1000 genomes]
rs1650684	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1650687	0.81[EUR][1000 genomes]
rs1650716	0.87[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1650723	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1677658	0.81[EUR][1000 genomes]
rs1677697	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1677705	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6151616	0.89[EUR][1000 genomes]
rs6151636	0.87[EUR][1000 genomes]
rs836789	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs836790	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs836792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs836803	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs836791	MSH3	cis	Thyroid	GTEx
rs836791	DHFR///LOC643509	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79899400-79910200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:79902400-79916600	Weak transcription	Thymus	Thymus
3	chr5:79904000-79914400	Weak transcription	Dnd41	blood
4	chr5:79904800-79925000	Weak transcription	Primary B cells from cord blood	blood
5	chr5:79906200-79910000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr5:79906600-79949200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:79907000-79910800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr5:79907000-79911000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr5:79908200-79909400	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr5:79908400-79909000	Enhancers	Monocytes-CD14+_RO01746	blood

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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

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