Variant report

Variant	rs12232307
Chromosome Location	chr15:35473385-35473386
allele	C/T
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	FOXA1	chr15:35473265-35473555	T-47D	breast:	n/a	n/a
2	FOXA1	chr15:35473334-35473612	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:35470907..35473908-chr15:35474557..35477034,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ATPBD4-3	chr15:35473213-35473692	NONHSAT041623

Variant related genes	Relation type
ANP32AP1	TF binding region

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10152519	0.85[EUR][1000 genomes]
rs10152995	0.86[EUR][1000 genomes]
rs10444813	0.84[EUR][1000 genomes]
rs10444865	0.98[ASN][1000 genomes]
rs11073086	0.82[EUR][1000 genomes]
rs11632681	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11635872	0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11854262	0.82[EUR][1000 genomes]
rs11854457	0.83[EUR][1000 genomes]
rs11855339	0.83[EUR][1000 genomes]
rs12439483	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12591832	0.98[ASN][1000 genomes]
rs12900262	0.89[ASN][1000 genomes]
rs12906317	0.99[ASN][1000 genomes]
rs12917029	0.99[ASN][1000 genomes]
rs13313465	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1458883	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1458885	0.85[EUR][1000 genomes]
rs16960534	0.83[EUR][1000 genomes]
rs16960582	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16960585	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16960587	0.87[EUR][1000 genomes]
rs2166157	0.93[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2168959	0.85[EUR][1000 genomes]
rs28448413	0.87[ASN][1000 genomes]
rs4597271	0.98[ASN][1000 genomes]
rs4924584	0.86[ASN][1000 genomes]
rs4924607	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55662900	0.85[EUR][1000 genomes]
rs56225597	0.86[EUR][1000 genomes]
rs59469657	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59766603	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62006770	0.86[EUR][1000 genomes]
rs62006771	0.86[EUR][1000 genomes]
rs62006772	0.85[ASN][1000 genomes]
rs6495758	0.85[EUR][1000 genomes]
rs67156387	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73389201	0.86[EUR][1000 genomes]
rs8024405	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8026065	0.99[ASN][1000 genomes]
rs8027994	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs8031065	0.98[ASN][1000 genomes]
rs967370	0.87[EUR][1000 genomes]
rs9944276	0.84[EUR][1000 genomes]
rs9972525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv904073	chr15:35467096-35686267	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35466000-35473400	Weak transcription	NHLF	lung
2	chr15:35470800-35473400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:35472200-35473400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr15:35472600-35473400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:35473200-35473600	Enhancers	H1 Cell Line	embryonic stem cell
6	chr15:35473200-35475000	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr15:35473200-35475200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:35473200-35475600	Enhancers	GM12878-XiMat	blood
9	chr15:35473200-35476000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr15:35473200-35476000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr15:35473200-35477000	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr15:35473200-35478000	Enhancers	ES-I3 Cell Line	embryonic stem cell

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