Variant report

Variant	rs1355838
Chromosome Location	chr4:90020471-90020472
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:90020125..90022512-chr4:90030896..90033415,2	K562	blood:

Variant related genes	Relation type
ENSG00000138640	Chromatin interaction
ENSG00000271359	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10009665	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097214	0.95[ASN][1000 genomes]
rs11097215	0.95[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12509747	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12641645	0.89[ASN][1000 genomes]
rs12643834	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12644568	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12646713	0.95[ASN][1000 genomes]
rs12646734	0.95[ASN][1000 genomes]
rs13124770	0.95[ASN][1000 genomes]
rs13148714	0.89[ASN][1000 genomes]
rs1355835	0.89[ASN][1000 genomes]
rs1513807	0.85[CEU][hapmap]
rs1513821	0.88[ASN][1000 genomes]
rs1533291	0.86[CEU][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap]
rs1708674	0.82[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs1708678	0.86[CEU][hapmap];0.80[MEX][hapmap];0.83[TSI][hapmap]
rs1708684	0.86[CEU][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap]
rs1795721	0.91[CEU][hapmap];0.80[CHB][hapmap]
rs1795731	0.82[CHB][hapmap];0.83[CHD][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs1795732	0.82[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs1795733	0.86[CEU][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap]
rs2037036	0.86[CEU][hapmap];0.82[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.83[MEX][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2037037	0.86[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2458545	0.86[CEU][hapmap]
rs2458546	0.81[ASN][1000 genomes]
rs2458547	0.81[ASN][1000 genomes]
rs2464516	0.81[ASN][1000 genomes]
rs2464517	0.88[ASN][1000 genomes]
rs2670624	0.86[CEU][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap]
rs2670625	0.82[CHB][hapmap];0.86[CHD][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2670626	0.86[CEU][hapmap];0.86[TSI][hapmap]
rs2670629	0.91[CEU][hapmap]
rs2670630	0.86[CEU][hapmap]
rs2704597	0.88[ASN][1000 genomes]
rs2869987	0.95[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2869988	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2869990	0.89[ASN][1000 genomes]
rs4634189	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4693221	0.85[ASN][1000 genomes]
rs4693983	0.91[ASN][1000 genomes]
rs6532094	0.86[CEU][hapmap]
rs6532099	0.84[ASN][1000 genomes]
rs6532109	0.87[ASN][1000 genomes]
rs6532112	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6833401	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6833424	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6833576	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6835031	0.91[ASN][1000 genomes]
rs6854285	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72665891	0.88[ASN][1000 genomes]
rs7440590	0.93[ASW][hapmap];0.95[CEU][hapmap];0.82[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs756175	0.91[ASN][1000 genomes]
rs756176	0.91[ASN][1000 genomes]
rs7660709	0.92[GIH][hapmap]
rs7691983	0.93[ASW][hapmap];0.95[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7696844	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs938264	0.91[ASN][1000 genomes]
rs938268	0.95[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9991151	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1007025	chr4:89837734-90098046	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv537176	chr4:89837734-90098046	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1002448	chr4:89933385-90128133	Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1355838	FAM190A	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90017200-90031600	Weak transcription	Right Atrium	heart
2	chr4:90020200-90021000	Enhancers	Primary hematopoietic stem cells	blood
3	chr4:90020200-90021400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr4:90020400-90021000	Enhancers	Primary T cells from cord blood	blood
5	chr4:90020400-90021200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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