Variant report

Variant	rs4899357
Chromosome Location	chr14:70978134-70978135
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10138243	0.98[ASN][1000 genomes]
rs10142102	0.83[CHB][hapmap]
rs10148586	0.83[CHB][hapmap]
rs10150707	0.88[CHB][hapmap]
rs10438162	0.95[ASN][1000 genomes]
rs10467821	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11844845	0.89[CHB][hapmap]
rs11850330	0.96[ASN][1000 genomes]
rs12589009	0.98[ASN][1000 genomes]
rs12889741	1.00[CHB][hapmap]
rs1573802	0.98[ASN][1000 genomes]
rs1959485	0.86[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[ASN][1000 genomes]
rs2095804	0.95[ASN][1000 genomes]
rs2293873	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2293876	0.90[ASN][1000 genomes]
rs2332387	0.85[ASN][1000 genomes]
rs2332425	0.98[ASN][1000 genomes]
rs28473545	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28763369	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2877657	0.84[CHB][hapmap]
rs4377098	0.98[ASN][1000 genomes]
rs4899354	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4902815	0.95[CHB][hapmap];0.87[GIH][hapmap];0.83[MEX][hapmap]
rs4902822	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56321313	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6573964	0.98[ASN][1000 genomes]
rs6573966	0.95[ASN][1000 genomes]
rs7144478	0.95[CHB][hapmap]
rs7144992	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7145424	0.91[ASN][1000 genomes]
rs7145656	0.98[ASN][1000 genomes]
rs7152848	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7153448	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7153459	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7161251	0.96[ASN][1000 genomes]
rs8006200	0.98[ASN][1000 genomes]
rs8014179	1.00[CHB][hapmap]
rs9323536	0.83[CHB][hapmap]
rs9652366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9743775	0.98[ASN][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	nsv565042	chr14:70951234-71011734	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1050615	chr14:70954149-71013235	Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv2763072	chr14:70954149-71013247	Strong transcription ZNF genes & repeats Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4899357	SLC8A3	cis	cerebellum	SCAN
rs4899357	MAP3K9	cis	cerebellum	SCAN
rs4899357	ZFYVE1	cis	parietal	SCAN
rs4899357	ADAM20	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:70958600-70989000	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr14:70958800-70993800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr14:70965200-70982000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr14:70968600-70989400	Weak transcription	Pancreas	Pancrea
5	chr14:70973400-70985200	Weak transcription	Left Ventricle	heart
6	chr14:70975800-70990000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr14:70977800-70978200	ZNF genes & repeats	Liver	Liver
8	chr14:70977800-70978200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
9	chr14:70978000-70978400	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links