Variant report

Variant	rs1437845
Chromosome Location	chr4:173653680-173653681
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10014796	0.94[EUR][1000 genomes]
rs10016257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[YRI][hapmap]
rs10026450	0.86[TSI][hapmap]
rs10029955	0.92[ASN][1000 genomes]
rs10031202	0.87[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.88[LWK][hapmap];0.97[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10050292	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[YRI][hapmap]
rs10213357	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10222748	0.83[CEU][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1074144	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11132960	1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11132964	0.81[GIH][hapmap]
rs11132967	0.81[GIH][hapmap]
rs11729518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11730738	0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11735233	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs11736072	1.00[CHB][hapmap]
rs11942645	0.81[GIH][hapmap]
rs13104048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs13134091	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13138074	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs13152161	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs1347703	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs1370576	0.87[CEU][hapmap]
rs1370577	0.87[CEU][hapmap]
rs1378312	0.81[TSI][hapmap]
rs1437836	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs1437843	1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1437844	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.83[MEX][hapmap];0.86[MKK][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1437854	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs1437855	1.00[CHB][hapmap];0.86[YRI][hapmap]
rs1437856	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1455120	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.88[TSI][hapmap];0.92[ASN][1000 genomes]
rs1455129	0.83[GIH][hapmap];0.83[TSI][hapmap]
rs1540473	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1540474	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs1540475	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap]
rs1540476	0.94[CEU][hapmap]
rs1540478	0.87[CEU][hapmap]
rs1551447	0.86[TSI][hapmap]
rs1561305	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap]
rs1561306	1.00[CEU][hapmap]
rs1561307	0.87[CEU][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.91[TSI][hapmap]
rs1595413	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17052104	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs17058691	1.00[CHB][hapmap]
rs17058876	0.81[GIH][hapmap]
rs1821862	0.87[CEU][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.91[TSI][hapmap]
rs1837132	0.94[EUR][1000 genomes]
rs2043780	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs2083136	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs2118443	0.83[CEU][hapmap]
rs2196669	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs2332549	1.00[CHB][hapmap]
rs2332550	0.94[CEU][hapmap]
rs28552483	0.94[EUR][1000 genomes]
rs28579160	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28727534	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28767047	0.94[EUR][1000 genomes]
rs34364219	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35170073	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4100737	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs4315754	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap]
rs4396969	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[YRI][hapmap]
rs4414931	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs4423855	0.84[CEU][hapmap]
rs4431209	1.00[CHB][hapmap]
rs4572851	0.87[CEU][hapmap]
rs6553640	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6553647	0.87[CEU][hapmap]
rs6553648	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67168311	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6817631	0.81[GIH][hapmap]
rs6822057	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6830773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs6841156	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs6853969	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs716645	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap]
rs716646	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap]
rs716647	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs7669486	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7671314	0.83[GIH][hapmap];0.83[TSI][hapmap]
rs7673000	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7674050	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs7677835	0.86[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9312528	0.87[CEU][hapmap]
rs9312534	0.81[GIH][hapmap]
rs9992901	1.00[CHB][hapmap];0.94[EUR][1000 genomes]
rs9995075	0.87[CEU][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs9997085	0.81[GIH][hapmap]

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	nsv1031592	chr4:173112542-173662991	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv537359	chr4:173112542-173662991	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv880685	chr4:173562564-173661711	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv880613	chr4:173569281-173661711	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv3327952	chr4:173591786-173805861	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1437845	SAP30	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173653200-173657400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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