Variant report

Variant	rs10935414
Chromosome Location	chr3:140645837-140645838
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:140631695..140633968-chr3:140644648..140646807,2	K562	blood:
2	chr3:140645222..140647869-chr3:140659939..140662297,3	K562	blood:
3	chr3:140645748..140651447-chr3:140658379..140662815,6	MCF-7	breast:
4	chr3:140642736..140646722-chr3:140659939..140663193,5	K562	blood:
5	chr3:140645140..140648440-chr3:140656551..140659391,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC25A36-1	chr3:140645814-140646435	l_2485_chr3:140591275-140621447_testes

No data

Variant related genes	Relation type
ENSG00000114120	Chromatin interaction

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1047330	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1056126	0.87[ASN][1000 genomes]
rs1056127	1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs10935413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1109282	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs1109283	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs11707116	0.87[ASN][1000 genomes]
rs11710204	0.98[ASN][1000 genomes]
rs11710926	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs11711131	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs11713505	0.94[CHB][hapmap];0.87[ASN][1000 genomes]
rs11713816	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714438	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs11715248	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs11717620	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs11718040	1.00[CHB][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs11718539	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11718563	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs11720342	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs12489397	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13063450	0.86[EUR][1000 genomes]
rs13099706	0.86[EUR][1000 genomes]
rs1401509	0.93[AFR][1000 genomes]
rs1568337	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1593623	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1593624	0.87[ASN][1000 genomes]
rs16850915	0.89[ASN][1000 genomes]
rs16850917	1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs16850921	1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs16850924	1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs16850926	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs16851001	0.83[EUR][1000 genomes]
rs2042759	0.80[EUR][1000 genomes]
rs2081662	0.86[EUR][1000 genomes]
rs2292919	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2310859	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2311491	0.86[EUR][1000 genomes]
rs2555702	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2555707	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2871615	0.94[CHB][hapmap];0.80[ASN][1000 genomes]
rs35140461	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3755764	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs3755765	0.87[ASN][1000 genomes]
rs3773835	1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs3773837	1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs3773838	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs4068843	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4524250	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4528914	0.85[EUR][1000 genomes]
rs4538351	0.86[EUR][1000 genomes]
rs57151068	0.87[ASN][1000 genomes]
rs57526660	0.87[ASN][1000 genomes]
rs57799705	0.87[ASN][1000 genomes]
rs59128309	0.87[ASN][1000 genomes]
rs59221985	0.87[ASN][1000 genomes]
rs61151473	0.98[ASN][1000 genomes]
rs61629363	0.87[ASN][1000 genomes]
rs61708145	0.87[ASN][1000 genomes]
rs6439962	0.87[ASN][1000 genomes]
rs6439964	0.86[EUR][1000 genomes]
rs6439969	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67142314	0.83[EUR][1000 genomes]
rs6764740	0.85[EUR][1000 genomes]
rs6767867	0.85[EUR][1000 genomes]
rs6770562	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6772634	0.86[EUR][1000 genomes]
rs6773249	0.86[EUR][1000 genomes]
rs6785007	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6785892	0.86[EUR][1000 genomes]
rs6788711	0.86[EUR][1000 genomes]
rs6789045	0.85[EUR][1000 genomes]
rs6789116	0.85[EUR][1000 genomes]
rs6789265	0.83[EUR][1000 genomes]
rs6797079	0.86[EUR][1000 genomes]
rs6809144	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6810200	0.87[ASN][1000 genomes]
rs713354	0.91[CEU][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72991025	0.80[ASN][1000 genomes]
rs72991046	0.98[ASN][1000 genomes]
rs7621150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7626525	0.87[ASN][1000 genomes]
rs7627987	0.83[EUR][1000 genomes]
rs7631373	0.83[EUR][1000 genomes]
rs7632043	0.85[ASN][1000 genomes]
rs7643287	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7643434	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7643614	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7644725	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7649116	0.86[ASN][1000 genomes]
rs7650179	0.83[EUR][1000 genomes]
rs7650190	0.83[EUR][1000 genomes]
rs7652381	0.91[CEU][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs765990	0.86[EUR][1000 genomes]
rs877142	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs957093	0.86[EUR][1000 genomes]
rs9833041	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9880468	0.80[EUR][1000 genomes];0.82[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	nsv591865	chr3:140396022-140728850	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1005522	chr3:140454632-140685915	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS 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	nsv536732	chr3:140454632-140685915	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats 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	nsv521218	chr3:140643038-140665147	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140641600-140646800	Weak transcription	Pancreas	Pancrea
2	chr3:140644000-140646400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:140644200-140646400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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