Variant report

Variant	rs10828623
Chromosome Location	chr10:18680935-18680936
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10734052	1.00[JPT][hapmap]
rs10741058	1.00[JPT][hapmap]
rs10741061	1.00[JPT][hapmap]
rs10764483	1.00[JPT][hapmap]
rs10828653	0.88[ASN][1000 genomes]
rs10828679	1.00[JPT][hapmap]
rs11014125	1.00[JPT][hapmap]
rs11014196	1.00[JPT][hapmap]
rs1575835	1.00[JPT][hapmap]
rs1575836	1.00[JPT][hapmap]
rs1926026	1.00[JPT][hapmap]
rs2209589	1.00[JPT][hapmap]
rs4748465	1.00[JPT][hapmap]
rs6415973	1.00[JPT][hapmap]
rs6482397	1.00[JPT][hapmap]
rs6482406	1.00[JPT][hapmap]
rs6482409	1.00[JPT][hapmap]
rs7077248	1.00[JPT][hapmap]
rs7084123	0.88[ASN][1000 genomes]
rs7912753	1.00[JPT][hapmap]
rs982003	1.00[JPT][hapmap]
rs983048	1.00[JPT][hapmap]
rs997264	1.00[JPT][hapmap]

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:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10828623	TRDMT1	cis	cerebellum	SCAN
rs10828623	CACNB2	cis	parietal	SCAN
rs10828623	ARL5B	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18666400-18682400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr10:18668400-18684000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:18669000-18689400	Weak transcription	Left Ventricle	heart
4	chr10:18676400-18682600	Weak transcription	Colon Smooth Muscle	Colon
5	chr10:18678200-18681000	Weak transcription	Fetal Heart	heart
6	chr10:18679400-18689200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:18680400-18683400	Weak transcription	Rectal Smooth Muscle	rectum

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

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