Variant report

Variant	rs10828625
Chromosome Location	chr10:18682539-18682540
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10764459	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11014026	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs1570939	1.00[CEU][hapmap];0.88[CHD][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.90[EUR][1000 genomes]
rs16917251	0.84[CHB][hapmap]
rs4145903	0.84[GIH][hapmap];0.90[JPT][hapmap]
rs4748459	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[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	nsv1046458	chr10:18629603-18683860	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
2	nsv550041	chr10:18671921-18686452	Enhancers Weak transcription Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10828625	TRDMT1	cis	cerebellum	SCAN
rs10828625	ACBD7	cis	parietal	SCAN
rs10828625	C10orf140	cis	parietal	SCAN
rs10828625	NSUN6	cis	parietal	SCAN
rs10828625	NSUN6	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18668400-18684000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:18669000-18689400	Weak transcription	Left Ventricle	heart
3	chr10:18676400-18682600	Weak transcription	Colon Smooth Muscle	Colon
4	chr10:18679400-18689200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr10:18680400-18683400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:18681400-18683200	Weak transcription	Fetal Heart	heart
7	chr10:18682400-18682800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	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