Variant report

Variant	rs2414120
Chromosome Location	chr15:52278329-52278330
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52269022..52271113-chr15:52277354..52279460,2	MCF-7	breast:
2	chr15:52278029..52280661-chr15:52471664..52473378,2	MCF-7	breast:
3	chr15:52277079..52289117-chr15:52304221..52314916,38	MCF-7	breast:

Variant related genes	Relation type
ENSG00000069956	Chromatin interaction
ENSG00000069966	Chromatin interaction
ENSG00000259577	Chromatin interaction
ENSG00000259438	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10152141	0.88[ASN][1000 genomes]
rs10518675	0.84[ASN][1000 genomes]
rs16964694	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16964700	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16964705	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17540338	1.00[EUR][1000 genomes]
rs17612255	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17612326	1.00[EUR][1000 genomes]
rs2001741	0.88[ASN][1000 genomes]
rs2017967	0.84[ASN][1000 genomes]
rs2246726	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2414121	0.85[AMR][1000 genomes]
rs2414123	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2441779	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2470593	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2470594	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2470595	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2554313	0.83[AMR][1000 genomes]
rs2554340	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3099571	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4375608	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4456445	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4491448	1.00[EUR][1000 genomes]
rs4775993	0.84[ASN][1000 genomes]
rs4775995	0.84[ASN][1000 genomes]
rs55714716	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55873482	0.88[ASN][1000 genomes]
rs56307802	0.84[ASN][1000 genomes]
rs56677715	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58000475	0.86[ASN][1000 genomes]
rs61546369	0.88[ASN][1000 genomes]
rs7177328	0.88[ASN][1000 genomes]
rs7359204	0.98[ASN][1000 genomes]
rs74013636	0.93[ASN][1000 genomes]
rs74013638	0.88[ASN][1000 genomes]
rs74013640	0.88[ASN][1000 genomes]
rs74013641	0.88[ASN][1000 genomes]
rs74013642	0.88[ASN][1000 genomes]
rs74013644	0.84[ASN][1000 genomes]
rs74013645	0.84[ASN][1000 genomes]
rs74013646	0.84[ASN][1000 genomes]
rs74013647	0.84[ASN][1000 genomes]
rs74013648	0.84[ASN][1000 genomes]
rs74013653	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs74013654	0.84[ASN][1000 genomes]
rs74013656	0.81[ASN][1000 genomes]
rs74013657	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74013659	1.00[EUR][1000 genomes]
rs751560	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8033365	0.81[ASN][1000 genomes]
rs8033840	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8040728	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs8041281	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9796534	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053788	chr15:52223389-52307138	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv1047260	chr15:52257100-52337418	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv1050664	chr15:52265723-52342101	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv517399	chr15:52266878-52305464	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv569421	chr15:52268144-52282436	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
6	nsv1536	chr15:52276293-52320919	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52274600-52279200	Weak transcription	Right Atrium	heart
2	chr15:52274600-52284600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:52274800-52278800	Weak transcription	Brain Angular Gyrus	brain
4	chr15:52274800-52287200	Weak transcription	HSMMtube	muscle

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