Variant report

Variant	rs793697
Chromosome Location	chr6:24377143-24377144
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1087266	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1277337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1277348	0.83[EUR][1000 genomes]
rs2753916	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2792666	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs793649	0.93[YRI][hapmap]
rs793650	0.82[MKK][hapmap];0.93[YRI][hapmap]
rs793664	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs793708	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs793711	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs793719	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs813227	0.82[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9366569	0.82[AFR][1000 genomes]

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	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs793697	ZKSCAN4	cis	cerebellum	SCAN
rs793697	ZSCAN12	cis	parietal	SCAN
rs793697	HIST1H3G	cis	cerebellum	SCAN
rs793697	ZKSCAN4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24372800-24381600	Weak transcription	Fetal Intestine Small	intestine
2	chr6:24376400-24377400	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr6:24376400-24377600	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr6:24376600-24377200	Weak transcription	HepG2	liver
5	chr6:24376800-24383200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:24377000-24377400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:24377000-24377400	Enhancers	HUES48 Cell Line	embryonic stem cell

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

what's new

Quick links