Variant report

Variant	rs893413
Chromosome Location	chr7:38586401-38586402
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10237576	0.82[EUR][1000 genomes]
rs10241398	1.00[CEU][hapmap];0.83[GIH][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1540480	0.93[EUR][1000 genomes]
rs1540481	0.80[TSI][hapmap]
rs2118462	0.84[AFR][1000 genomes]
rs2164838	0.81[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs41478945	1.00[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4385366	0.95[EUR][1000 genomes]
rs6942910	0.92[CEU][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7778286	0.92[CEU][hapmap];0.98[GIH][hapmap];0.86[LWK][hapmap];0.92[MKK][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932229	chr7:38248340-38727527	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv830966	chr7:38393663-38602553	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1018890	chr7:38557432-38600944	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs893413	STARD3NL	cis	parietal	SCAN
rs893413	LOC646999	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38579400-38586800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr7:38586200-38587600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr7:38586400-38587400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:38586400-38587600	Enhancers	Cortex derived primary cultured neurospheres	brain

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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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