Variant report

Variant	rs12909979
Chromosome Location	chr15:58241022-58241023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58231177..58234501-chr15:58239408..58241743,3	K562	blood:
2	chr15:58240885..58242709-chr15:58255403..58258372,2	K562	blood:
3	chr15:58240183..58241922-chr15:58434571..58436348,2	K562	blood:
4	chr15:58233582..58235839-chr15:58240591..58242215,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10518961	0.83[ASN][1000 genomes]
rs1061278	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1063666	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10851632	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11071363	0.83[ASN][1000 genomes]
rs11071364	0.83[ASN][1000 genomes]
rs11631127	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11636979	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11857465	0.84[ASN][1000 genomes]
rs12148281	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12324197	0.92[ASN][1000 genomes]
rs12594082	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12595180	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12595410	0.86[ASN][1000 genomes]
rs12898976	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12903724	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12905608	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12907125	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12909423	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12909865	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12911450	0.85[ASN][1000 genomes]
rs12912093	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12914388	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12914414	0.85[ASN][1000 genomes]
rs12914455	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12915508	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12915821	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12915989	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12917536	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1372369	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1441815	0.90[ASN][1000 genomes]
rs1441819	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1441829	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17820966	0.80[ASN][1000 genomes]
rs17820990	0.88[EUR][1000 genomes]
rs1812889	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1822205	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1837851	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1899355	0.86[ASN][1000 genomes]
rs1994926	0.83[ASN][1000 genomes]
rs1994927	0.87[EUR][1000 genomes]
rs2044071	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2067062	0.81[ASN][1000 genomes]
rs2119859	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2197092	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2414527	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2414529	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2414530	0.87[EUR][1000 genomes]
rs2642630	0.84[ASN][1000 genomes]
rs2642632	0.85[ASN][1000 genomes]
rs2704196	0.85[ASN][1000 genomes]
rs2704197	0.83[ASN][1000 genomes]
rs2899611	0.84[ASN][1000 genomes]
rs2899612	0.83[ASN][1000 genomes]
rs3204690	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs33960206	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34226780	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34556514	0.83[ASN][1000 genomes]
rs34676542	0.85[ASN][1000 genomes]
rs34958088	0.80[ASN][1000 genomes]
rs3742959	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3742960	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3742961	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3784256	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3784257	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3784259	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3784263	0.87[AFR][1000 genomes]
rs3784264	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4238327	0.83[ASN][1000 genomes]
rs4553566	0.83[ASN][1000 genomes]
rs4646554	0.87[EUR][1000 genomes]
rs4646555	0.88[EUR][1000 genomes]
rs4646559	0.88[EUR][1000 genomes]
rs4646560	0.87[EUR][1000 genomes]
rs4646564	0.88[EUR][1000 genomes]
rs4646566	0.88[EUR][1000 genomes]
rs4646570	0.83[ASN][1000 genomes]
rs4646579	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4646580	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4646581	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4646582	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4646584	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4646588	0.86[ASN][1000 genomes]
rs4646589	0.84[ASN][1000 genomes]
rs4646590	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4646592	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4646594	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4646595	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4646596	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4646597	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4646598	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4646600	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4646602	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4646603	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4646605	0.87[ASN][1000 genomes]
rs4646606	0.86[ASN][1000 genomes]
rs4646607	0.84[ASN][1000 genomes]
rs4646609	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4646620	0.87[AFR][1000 genomes]
rs4646623	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4646625	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646626	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646635	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4646642	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4646645	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4775006	0.82[AMR][1000 genomes]
rs57975858	0.92[ASN][1000 genomes]
rs6493977	0.84[ASN][1000 genomes]
rs6493978	0.84[ASN][1000 genomes]
rs6493979	0.83[ASN][1000 genomes]
rs6493980	0.87[EUR][1000 genomes]
rs6493981	0.88[EUR][1000 genomes]
rs66971399	0.84[ASN][1000 genomes]
rs7171261	0.87[EUR][1000 genomes]
rs7171714	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7178598	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7180059	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8023769	0.83[ASN][1000 genomes]
rs8026952	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8027188	0.83[ASN][1000 genomes]
rs8027964	0.83[ASN][1000 genomes]
rs8032572	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8041644	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9635346	0.87[ASN][1000 genomes]
rs9635350	0.87[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	nsv1038667	chr15:57933076-58481870	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription 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	22 gene(s)	inside rSNPs	diseases
2	nsv542400	chr15:57933076-58481870	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv833023	chr15:58161839-58340174	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv569593	chr15:58201698-58308650	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 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	chr15:58234200-58242200	Weak transcription	Right Atrium	heart
2	chr15:58236000-58242200	Weak transcription	Fetal Kidney	kidney
3	chr15:58240200-58252800	Weak transcription	Fetal Lung	lung
4	chr15:58240400-58247000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr15:58240600-58242800	Enhancers	Ovary	ovary
6	chr15:58241000-58241200	Enhancers	Fetal Muscle Leg	muscle

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