Variant report

Variant	rs74089561
Chromosome Location	chr12:49936247-49936248
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:49930852..49937653-chr12:49953841..49959391,7	K562	blood:
2	chr12:49760077..49762652-chr12:49935059..49937022,2	MCF-7	breast:
3	chr12:49935009..49937186-chr12:49951821..49953735,2	K562	blood:
4	chr12:49936026..49937572-chr12:49942956..49945602,2	K562	blood:
5	chr12:49933783..49936509-chr12:49951821..49953726,3	K562	blood:
6	chr12:49931420..49936579-chr12:49960006..49963071,6	MCF-7	breast:
7	chr12:49934751..49937264-chr12:49959231..49961554,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187778	Chromatin interaction
ENSG00000123352	Chromatin interaction
ENSG00000110844	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11836976	1.00[AMR][1000 genomes]
rs17853062	1.00[AMR][1000 genomes]
rs56005192	1.00[AMR][1000 genomes]
rs56014465	1.00[AMR][1000 genomes]
rs56140046	1.00[AMR][1000 genomes]
rs56330550	1.00[AMR][1000 genomes]
rs57546911	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60712360	1.00[AMR][1000 genomes]
rs60865902	1.00[AMR][1000 genomes]
rs61110708	1.00[AMR][1000 genomes]
rs7296117	1.00[AMR][1000 genomes]
rs7299056	1.00[AMR][1000 genomes]
rs7309243	1.00[AMR][1000 genomes]
rs74087114	1.00[AMR][1000 genomes]
rs74087152	1.00[AMR][1000 genomes]
rs74087193	1.00[AMR][1000 genomes]
rs74089010	1.00[AMR][1000 genomes]
rs74089028	1.00[AMR][1000 genomes]
rs74089030	1.00[AMR][1000 genomes]
rs74089031	1.00[AMR][1000 genomes]
rs74089060	1.00[AMR][1000 genomes]
rs74089565	0.90[AFR][1000 genomes];1.00[AMR][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	nsv899070	chr12:49811311-49941500	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats 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	nsv832406	chr12:49860693-50062136	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer 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	nsv482795	chr12:49897633-50068686	Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv899071	chr12:49927148-49955935	Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:49933000-49942600	Weak transcription	Pancreas	Pancrea
2	chr12:49933400-49942000	Weak transcription	Right Ventricle	heart
3	chr12:49933400-49942400	Weak transcription	Right Atrium	heart
4	chr12:49933600-49937600	Weak transcription	Ovary	ovary
5	chr12:49934000-49937600	Weak transcription	Brain Anterior Caudate	brain
6	chr12:49934200-49936800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr12:49934200-49937000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr12:49934200-49942000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr12:49934400-49937000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr12:49934600-49942200	Weak transcription	Brain Angular Gyrus	brain
11	chr12:49935200-49937400	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr12:49935200-49938200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr12:49935400-49936600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr12:49935400-49936800	Enhancers	HepG2	liver
15	chr12:49935600-49937400	Enhancers	Primary T cells fromperipheralblood	blood
16	chr12:49935800-49936600	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr12:49935800-49937400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr12:49936200-49937600	Weak transcription	Esophagus	oesophagus
19	chr12:49936200-49939200	Bivalent Enhancer	Fetal Thymus	thymus

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