Variant report

Variant	rs10828662
Chromosome Location	chr10:18703097-18703098
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10828650	0.83[JPT][hapmap]
rs1570939	0.88[GIH][hapmap]
rs7079485	0.86[JPT][hapmap]

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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10828662	C10orf140	cis	parietal	SCAN
rs10828662	NSUN6	cis	cerebellum	SCAN
rs10828662	C10orf111	cis	parietal	SCAN
rs10828662	FAM188A	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18690000-18703600	Weak transcription	Fetal Stomach	stomach
2	chr10:18690000-18705600	Weak transcription	Aorta	Aorta
3	chr10:18690200-18713000	Weak transcription	Ovary	ovary
4	chr10:18692000-18712600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr10:18692600-18707600	Weak transcription	Brain Angular Gyrus	brain
6	chr10:18700000-18703600	Enhancers	Fetal Heart	heart
7	chr10:18701000-18705800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr10:18702600-18703400	Enhancers	Liver	Liver
9	chr10:18702600-18703600	Enhancers	Pancreas	Pancrea
10	chr10:18702800-18703200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr10:18702800-18703200	Enhancers	Colon Smooth Muscle	Colon
12	chr10:18702800-18703200	Enhancers	Lung	lung
13	chr10:18702800-18703200	Enhancers	Stomach Smooth Muscle	stomach
14	chr10:18702800-18703600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr10:18702800-18703600	Enhancers	Left Ventricle	heart
16	chr10:18702800-18707600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:18703000-18703200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:18703000-18704200	Enhancers	Rectal Smooth Muscle	rectum
19	chr10:18703000-18705400	Weak transcription	Right Ventricle	heart

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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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