Variant report

Variant	rs2914200
Chromosome Location	chr5:112945992-112945993
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10045444	0.82[AMR][1000 genomes]
rs1132528	0.84[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.88[AMR][1000 genomes]
rs11957650	0.90[AMR][1000 genomes]
rs12657961	0.82[ASW][hapmap]
rs164251	0.81[CEU][hapmap]
rs164253	0.96[CEU][hapmap];0.88[JPT][hapmap]
rs2303717	0.88[AMR][1000 genomes]
rs2416282	1.00[ASW][hapmap];0.88[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap]
rs2910018	0.81[CEU][hapmap]
rs348937	0.84[CEU][hapmap];0.81[GIH][hapmap]
rs348943	0.84[CEU][hapmap]
rs3906371	0.96[MEX][hapmap]
rs423089	0.81[CEU][hapmap]
rs4398627	0.84[MEX][hapmap]
rs459428	0.81[CEU][hapmap]
rs461034	0.81[CEU][hapmap]
rs463216	0.81[CEU][hapmap]
rs4639215	0.84[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap]
rs465898	0.81[CEU][hapmap]
rs4705831	0.88[AMR][1000 genomes]
rs66534827	0.91[AMR][1000 genomes]
rs675353	0.84[ASW][hapmap];0.81[CEU][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap]
rs9326895	0.84[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap]
rs9552	0.82[ASW][hapmap];0.96[MEX][hapmap];0.86[AMR][1000 genomes]
rs9885084	0.92[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882721	chr5:112859994-112963488	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv1033202	chr5:112891857-112945992	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
3	esv2752057	chr5:112916398-112945992	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv1029507	chr5:112916398-112945992	Strong transcription Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
5	esv2763910	chr5:112916398-112951827	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv1031336	chr5:112916398-112956588	Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv4961	chr5:112945908-112991152	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2914200	YTHDC2	cis	parietal	SCAN
rs2914200	YTHDC2	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112944200-112949000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr5:112944400-112950000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:112944400-112950000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links