Variant report

Variant	rs13131896
Chromosome Location	chr4:78749931-78749932
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:78747873..78749550-chr4:78749630..78752055,2	MCF-7	breast:
2	chr4:78747476..78750406-chr4:78783392..78785399,2	K562	blood:
3	chr4:78740903..78742923-chr4:78749495..78752276,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169288	Chromatin interaction

Extended variants
information (count: 140 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10005741	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10007837	0.81[ASN][1000 genomes]
rs10222901	0.86[ASN][1000 genomes]
rs1039467	0.91[AMR][1000 genomes]
rs10856982	0.86[ASN][1000 genomes]
rs11097935	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11097965	0.84[ASN][1000 genomes]
rs1156059	0.86[ASN][1000 genomes]
rs11721383	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11723029	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs11723221	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11727993	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11729703	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11730329	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730403	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11731374	0.90[ASN][1000 genomes]
rs11732039	0.91[AMR][1000 genomes]
rs11733759	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11734428	0.91[AMR][1000 genomes]
rs11737353	0.90[ASN][1000 genomes]
rs11737861	0.81[ASN][1000 genomes]
rs11939576	1.00[ASN][1000 genomes]
rs13111592	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13118459	0.81[ASN][1000 genomes]
rs13137909	0.86[ASN][1000 genomes]
rs13138341	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13144225	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13144226	0.86[ASN][1000 genomes]
rs1402626	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1501373	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1502880	0.81[AMR][1000 genomes]
rs1521419	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1553386	0.91[AMR][1000 genomes]
rs1554457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002823	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002824	1.00[ASN][1000 genomes]
rs17002825	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002828	1.00[ASN][1000 genomes]
rs17002829	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002831	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1813725	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1814033	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1847216	0.91[AMR][1000 genomes]
rs1980266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2030463	0.84[ASN][1000 genomes]
rs2102116	0.81[ASN][1000 genomes]
rs2102190	0.81[AMR][1000 genomes]
rs2134459	0.91[AMR][1000 genomes]
rs2173869	0.86[ASN][1000 genomes]
rs2866444	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2866688	1.00[ASN][1000 genomes]
rs2866689	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28796999	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28891692	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2903291	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3849580	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4078523	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4304001	1.00[ASN][1000 genomes]
rs4331798	0.85[AMR][1000 genomes]
rs4365752	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4388114	0.92[ASN][1000 genomes]
rs4410552	1.00[ASN][1000 genomes]
rs4417999	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4473672	0.85[AMR][1000 genomes]
rs4541532	0.86[ASN][1000 genomes]
rs4607246	0.92[ASN][1000 genomes]
rs4859506	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4859871	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4859876	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4859878	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55673370	0.90[ASN][1000 genomes]
rs55694923	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55886549	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57221952	0.91[AMR][1000 genomes]
rs57246363	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57501818	0.88[ASN][1000 genomes]
rs57868780	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58054752	0.91[AMR][1000 genomes]
rs58218398	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58358199	0.93[ASN][1000 genomes]
rs60135456	0.98[ASN][1000 genomes]
rs6533239	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6533269	0.86[ASN][1000 genomes]
rs6533270	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6533271	0.86[ASN][1000 genomes]
rs6533272	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6533274	0.87[ASN][1000 genomes]
rs6533290	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533358	0.87[AMR][1000 genomes]
rs6533359	0.91[AMR][1000 genomes]
rs6533374	0.81[AMR][1000 genomes]
rs6533376	0.81[AMR][1000 genomes]
rs6814830	0.80[AMR][1000 genomes]
rs6817305	1.00[ASN][1000 genomes]
rs6817823	0.86[ASN][1000 genomes]
rs6822317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823465	0.81[ASN][1000 genomes]
rs6827822	0.98[ASN][1000 genomes]
rs6828302	0.86[ASN][1000 genomes]
rs6830993	0.85[AMR][1000 genomes]
rs6836627	0.88[ASN][1000 genomes]
rs6838630	0.88[ASN][1000 genomes]
rs6849922	0.87[ASN][1000 genomes]
rs6850049	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6850111	0.81[ASN][1000 genomes]
rs6850590	0.91[AMR][1000 genomes]
rs6851286	0.81[AMR][1000 genomes]
rs6855336	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6857067	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6857479	0.81[AMR][1000 genomes]
rs72868269	1.00[ASN][1000 genomes]
rs72869573	0.80[ASN][1000 genomes]
rs73827437	0.99[ASN][1000 genomes]
rs73827443	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73827451	0.92[ASN][1000 genomes]
rs73827456	0.85[AMR][1000 genomes]
rs73827459	0.91[AMR][1000 genomes]
rs73827460	0.91[AMR][1000 genomes]
rs7655949	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7657658	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7661064	0.88[ASN][1000 genomes]
rs7669988	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7671941	0.80[ASN][1000 genomes]
rs7675586	0.85[ASN][1000 genomes]
rs7687812	0.88[ASN][1000 genomes]
rs7689226	0.91[ASN][1000 genomes]
rs7692075	0.87[ASN][1000 genomes]
rs7693256	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs885376	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9991424	0.91[AMR][1000 genomes]
rs9993942	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9996218	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829976	chr4:78576657-78757798	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv879501	chr4:78647634-78866007	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	esv1818157	chr4:78678104-78849088	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv2752050	chr4:78693311-78975321	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1010714	chr4:78742505-78991030	Weak transcription Genic enhancers Bivalent/Poised TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	esv1824966	chr4:78747771-78823070	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv516836	chr4:78748977-78981919	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv594704	chr4:78748977-78981919	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13131896	CNOT6L	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78743200-78750000	Enhancers	Primary T cells fromperipheralblood	blood
2	chr4:78743400-78750200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr4:78746800-78750000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr4:78746800-78750000	Enhancers	Thymus	Thymus
5	chr4:78747000-78750000	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr4:78747000-78750400	Enhancers	Primary T cells from cord blood	blood
7	chr4:78747000-78750600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr4:78747000-78750800	Enhancers	Fetal Thymus	thymus
9	chr4:78747200-78750600	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr4:78747800-78750600	Enhancers	Dnd41	blood
11	chr4:78749200-78750000	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr4:78749400-78750000	Enhancers	Primary T helper naive cells from peripheral blood	blood

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