Variant report

Variant	rs373481
Chromosome Location	chr15:93205454-93205455
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93204078..93206923-chr15:93209945..93212350,2	K562	blood:
2	chr15:93203874..93206240-chr15:93209542..93213780,3	K562	blood:
3	chr15:93203594..93207995-chr15:93208345..93212405,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12443091	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12908852	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1496712	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1496726	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16974307	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2254142	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs2453901	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs285754	0.84[CEU][hapmap];0.84[MEX][hapmap];0.80[EUR][1000 genomes]
rs285755	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs285757	0.84[CEU][hapmap];0.84[MEX][hapmap];0.81[EUR][1000 genomes]
rs285758	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs285766	0.91[MEX][hapmap]
rs285772	0.87[EUR][1000 genomes]
rs406032	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs413450	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs434826	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs503112	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6496969	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7178546	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs893379	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	nsv1040501	chr15:93177153-93286393	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs373481	RGMA	cis	parietal	SCAN
rs373481	PRC1	cis	parietal	SCAN
rs373481	HIST1H2AH	trans	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93199600-93210000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:93200000-93207600	Weak transcription	Stomach Mucosa	stomach
3	chr15:93200200-93207600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr15:93200200-93207600	Weak transcription	Pancreas	Pancrea
5	chr15:93200600-93207400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr15:93201200-93207000	Weak transcription	Ovary	ovary
7	chr15:93202200-93207200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:93204000-93210600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:93204600-93208000	Weak transcription	Placenta	Placenta
10	chr15:93205000-93206000	Weak transcription	GM12878-XiMat	blood
11	chr15:93205200-93206600	Enhancers	A549	lung
12	chr15:93205400-93205600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr15:93205400-93206600	Enhancers	Hela-S3	cervix
14	chr15:93205400-93208400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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