Variant report

Variant	rs298736
Chromosome Location	chr1:224844991-224844992
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:224844736..224846811-chr1:224848946..224850783,2	K562	blood:

Variant related genes	Relation type
ENSG00000234247	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10158430	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10458376	0.92[EUR][1000 genomes]
rs10495223	0.81[CEU][hapmap]
rs10495224	0.81[CEU][hapmap]
rs10799276	0.92[EUR][1000 genomes]
rs10915692	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs12030079	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12030696	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12032349	1.00[CEU][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs12041370	1.00[CEU][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes]
rs12046028	1.00[CEU][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs12133496	0.81[CEU][hapmap]
rs12135077	0.81[CEU][hapmap]
rs12144488	0.81[CEU][hapmap]
rs12145463	0.82[ASW][hapmap]
rs1369848	0.85[YRI][hapmap]
rs1499281	0.96[EUR][1000 genomes]
rs1499282	0.93[CEU][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes]
rs16851528	0.81[CEU][hapmap]
rs17513562	0.93[CEU][hapmap];0.82[TSI][hapmap];0.93[EUR][1000 genomes]
rs17514252	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs17514370	0.92[EUR][1000 genomes]
rs17573714	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs1846501	0.96[EUR][1000 genomes]
rs3738363	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs3738364	0.81[CEU][hapmap]
rs3738365	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs4564105	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs4653593	0.82[EUR][1000 genomes]
rs55744530	0.96[EUR][1000 genomes]
rs56121354	0.93[EUR][1000 genomes]
rs56228106	0.93[EUR][1000 genomes]
rs56365526	0.91[EUR][1000 genomes]
rs57395227	0.96[EUR][1000 genomes]
rs58715712	0.93[EUR][1000 genomes]
rs59962884	0.93[EUR][1000 genomes]
rs6426145	0.81[CEU][hapmap]
rs6656922	0.82[EUR][1000 genomes]
rs6665737	0.92[EUR][1000 genomes]
rs6666840	0.81[CEU][hapmap]
rs722849	1.00[CEU][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes]
rs7513639	0.96[EUR][1000 genomes]
rs7521221	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs7525096	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs7537218	0.92[EUR][1000 genomes]
rs7547239	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs7549891	1.00[CEU][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs930323	1.00[CEU][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes]
rs9660752	1.00[CEU][hapmap]
rs9660759	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9660787	0.96[EUR][1000 genomes]
rs9661696	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9661955	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9662179	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs9662190	1.00[CEU][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes]
rs9725216	0.82[EUR][1000 genomes]
rs9725225	0.82[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	nsv1014717	chr1:224551939-224885543	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv535311	chr1:224551939-224885543	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs298736	DEGS1	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224828800-224853400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:224832200-224884400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:224832800-224869000	Weak transcription	Dnd41	blood
4	chr1:224833200-224874400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:224838400-224853200	Weak transcription	Psoas Muscle	Psoas
6	chr1:224840800-224845000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:224840800-224850800	Weak transcription	NHDF-Ad	bronchial
8	chr1:224840800-224856800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:224840800-224858000	Weak transcription	NH-A	brain
10	chr1:224841000-224856600	Weak transcription	Pancreas	Pancrea
11	chr1:224843400-224845000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr1:224843400-224845200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:224844600-224852800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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