Variant report

Variant	rs59145189
Chromosome Location	chr10:1568212-1568213
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:1567992-1568241	Gliobla	brain:	n/a	n/a
2	TCF3	chr10:1567816-1568264	GM12878	blood:	n/a	chr10:1567895-1567908
3	NFATC1	chr10:1567723-1568338	GM12878	blood:	n/a	n/a
4	BCL3	chr10:1567710-1568318	GM12878	blood:	n/a	chr10:1568282-1568291
5	SUZ12	chr10:1567921-1568302	H1-hESC	embryonic stem cell:	n/a	n/a
6	NFATC1	chr10:1567743-1568328	GM12878	blood:	n/a	n/a
7	REST	chr10:1568189-1569144	PFSK-1	brain:	n/a	chr10:1568517-1568526 chr10:1568515-1568523
8	POLR2A	chr10:1567670-1568369	GM12892	blood:	n/a	n/a
9	MYC	chr10:1568022-1568213	MCF-7	breast:	n/a	n/a
10	POLR2A	chr10:1567715-1568310	GM12878	blood:	n/a	n/a
11	POLR2A	chr10:1567881-1568248	MCF-7	breast:	n/a	n/a
12	BCL3	chr10:1567685-1568372	GM12878	blood:	n/a	chr10:1568282-1568291
13	PBX3	chr10:1567756-1568294	GM12878	blood:	n/a	n/a
14	POU2F2	chr10:1567699-1568270	GM12891	blood:	n/a	n/a
15	POLR2A	chr10:1567769-1568249	PFSK-1	brain:	n/a	n/a
16	STAT5A	chr10:1567796-1568287	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
ADARB2-AS1	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10751800	1.00[EUR][1000 genomes]
rs11250604	1.00[EUR][1000 genomes]
rs12251442	1.00[EUR][1000 genomes]
rs12254327	1.00[EUR][1000 genomes]
rs12254717	1.00[EUR][1000 genomes]
rs17156451	1.00[EUR][1000 genomes]
rs2676748	1.00[EUR][1000 genomes]
rs2676781	1.00[EUR][1000 genomes]
rs2805542	1.00[EUR][1000 genomes]
rs2820653	1.00[EUR][1000 genomes]
rs55775929	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59259273	1.00[EUR][1000 genomes]
rs60457795	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61193667	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61834362	1.00[EUR][1000 genomes]
rs6560734	1.00[EUR][1000 genomes]
rs7082213	1.00[EUR][1000 genomes]
rs7084358	1.00[EUR][1000 genomes]
rs7093762	1.00[EUR][1000 genomes]
rs73582376	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582382	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73586256	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73586261	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74121016	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74121028	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74121034	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7912569	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530117	chr10:945438-1729634	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv817532	chr10:964660-1885945	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1041498	chr10:1117200-1760190	Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv1052682	chr10:1162925-1675641	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1043944	chr10:1168095-1626019	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv540411	chr10:1168095-1626019	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv1046041	chr10:1195214-2189155	Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
8	nsv1037054	chr10:1232041-1865296	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv540413	chr10:1232041-1865296	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv549769	chr10:1244020-1764966	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv549786	chr10:1293100-1904598	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv894736	chr10:1513349-1672408	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv1054555	chr10:1558145-1965145	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	nsv894737	chr10:1560338-1692796	Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	esv3404759	chr10:1565952-1570250	Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:1565000-1568800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr10:1565200-1568800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:1565200-1568800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr10:1565600-1568800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:1565600-1569200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr10:1565800-1578000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr10:1567800-1568400	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:1567800-1568400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:1567800-1569200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:1568000-1569200	Enhancers	H1 Cell Line	embryonic stem cell
11	chr10:1568000-1569800	Flanking Active TSS	Dnd41	blood
12	chr10:1568200-1568400	Bivalent Enhancer	Fetal Kidney	kidney
13	chr10:1568200-1568400	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
14	chr10:1568200-1568800	Weak transcription	Esophagus	oesophagus
15	chr10:1568200-1571400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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