Variant report

Variant	rs41443545
Chromosome Location	chr7:26434762-26434763
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10951134	0.85[CEU][hapmap]
rs12531639	0.85[CEU][hapmap];0.93[GIH][hapmap]
rs12669500	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6461937	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs763453	0.91[EUR][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	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs41443545	CYCS	cis	parietal	SCAN
rs41443545	KIAA0087	cis	parietal	SCAN
rs41443545	LOC441204	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26418600-26436000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr7:26428200-26436000	Weak transcription	Fetal Brain Male	brain
3	chr7:26428200-26437400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr7:26428400-26436800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr7:26428400-26436800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr7:26430200-26437200	Weak transcription	Brain Germinal Matrix	brain
7	chr7:26431600-26436400	Weak transcription	Fetal Kidney	kidney
8	chr7:26432600-26436600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr7:26434000-26437600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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