Variant report

Variant	rs12440456
Chromosome Location	chr15:35284307-35284308
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:35268400..35271114-chr15:35282983..35285387,2	MCF-7	breast:
2	chr15:35278794..35283582-chr15:35283942..35288956,6	MCF-7	breast:
3	chr15:35282844..35285417-chr15:35840197..35842682,2	K562	blood:
4	chr15:35279726..35281259-chr15:35283803..35285647,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000212768	Chromatin interaction
ENSG00000198146	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10438394	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10444812	0.90[ASN][1000 genomes]
rs12185138	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12441126	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12442577	0.98[ASN][1000 genomes]
rs12442905	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1964518	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2339747	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28433224	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28441514	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35356959	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35799802	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4924435	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4924440	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4924463	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8029930	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8037200	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35281000-35287600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:35281200-35286200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:35281200-35289600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:35281400-35286400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr15:35281400-35286400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr15:35281400-35286600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:35281400-35299000	Weak transcription	Right Atrium	heart
8	chr15:35281600-35286000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:35281800-35285400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr15:35282000-35285400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr15:35282000-35285400	Weak transcription	Hela-S3	cervix
12	chr15:35282000-35285400	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr15:35283600-35285000	Enhancers	GM12878-XiMat	blood
14	chr15:35284000-35285200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:35284000-35285200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:35284000-35285400	Weak transcription	K562	blood
17	chr15:35284000-35285800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr15:35284000-35285800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr15:35284000-35286400	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr15:35284000-35286400	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:35284000-35286800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr15:35284000-35287200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr15:35284000-35287200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr15:35284200-35285200	Weak transcription	HMEC	breast
25	chr15:35284200-35285200	Weak transcription	NHEK	skin

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