Variant report

Variant	rs10016403
Chromosome Location	chr4:74399407-74399408
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10004505	0.88[EUR][1000 genomes]
rs10011536	0.80[AMR][1000 genomes]
rs10019146	0.88[CEU][hapmap]
rs10028196	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10028276	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10029673	0.87[CEU][hapmap]
rs10212657	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10213305	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10805065	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10938077	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10938078	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10938079	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10938085	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10938086	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10938088	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs1159624	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11728915	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11733262	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11935001	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11939341	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11943798	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1247668	0.89[CEU][hapmap]
rs12503916	0.88[CEU][hapmap]
rs12504448	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12507775	0.88[CEU][hapmap]
rs12508974	0.87[EUR][1000 genomes]
rs12510629	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13103378	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13115877	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13120998	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13124940	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13144296	0.88[CEU][hapmap]
rs13149172	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs13150405	0.87[ASN][1000 genomes]
rs13353732	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1358592	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1528917	0.89[CEU][hapmap]
rs1528918	0.87[CEU][hapmap]
rs1528924	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1569204	0.88[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1590115	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1590116	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16849461	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs16849508	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs16849628	0.88[CEU][hapmap]
rs16849677	0.89[CEU][hapmap]
rs16849727	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1881611	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1894293	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1919469	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1919479	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1997332	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1997333	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2008288	0.89[CEU][hapmap]
rs2040354	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2071097	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2141465	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2141470	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2178290	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2178292	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2204736	0.90[ASN][1000 genomes]
rs28838047	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34238679	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34468776	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35233345	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35988516	0.92[ASN][1000 genomes]
rs4235119	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4267703	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4267704	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4267705	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4438732	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4574378	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4618279	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4631010	0.91[ASN][1000 genomes]
rs4694173	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56011127	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56384466	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6446937	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6446938	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6446939	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6446941	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6837506	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6852149	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6852772	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs72647083	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7676460	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7682201	0.88[CEU][hapmap]
rs9990707	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9997572	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9999939	0.89[CEU][hapmap]

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	esv3430875	chr4:74243646-74420354	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv530126	chr4:74376622-74843892	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv3364178	chr4:74383966-74400177	Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74390400-74399800	Weak transcription	Fetal Intestine Small	intestine
2	chr4:74394200-74400000	Genic enhancers	Liver	Liver
3	chr4:74398800-74402400	Enhancers	HepG2	liver
4	chr4:74399200-74399600	Weak transcription	Fetal Intestine Large	intestine
5	chr4:74399200-74399800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:74399400-74400400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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