Variant report

Variant	rs6513775
Chromosome Location	chr20:40894261-40894262
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1004809	0.85[AFR][1000 genomes]
rs10485689	0.87[LWK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs17221823	0.86[JPT][hapmap]
rs17314864	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs2903466	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs56256174	0.87[ASN][1000 genomes]
rs6016698	0.86[JPT][hapmap]
rs6030014	0.86[JPT][hapmap]
rs6065437	0.88[YRI][hapmap]
rs6072649	1.00[YRI][hapmap]
rs6072653	0.85[AFR][1000 genomes]
rs6072662	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs6072666	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs6072667	0.87[LWK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs7262414	0.87[LWK][hapmap];0.88[YRI][hapmap]
rs73120444	0.84[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	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv532516	chr20:40451059-41097155	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6513775	KCNS1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:40885400-40902800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr20:40885800-40896800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr20:40893200-40901200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr20:40894200-40895200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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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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