Variant report

Variant	rs3902673
Chromosome Location	chr10:45539763-45539764
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:45453305..45456284-chr10:45538463..45540914,2	K562	blood:

Variant related genes	Relation type
ENSG00000224812	Chromatin interaction
ENSG00000273363	Chromatin interaction
ENSG00000107551	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10751364	0.83[AMR][1000 genomes]
rs10751365	0.81[CEU][hapmap];0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10793581	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs10900160	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900161	0.83[AMR][1000 genomes]
rs1332621	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343628	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1578875	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2311846	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs3740090	0.88[AFR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3862870	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3901394	0.83[AMR][1000 genomes]
rs3908729	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4027069	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4097763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4456217	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6593456	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7896524	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7898523	0.84[AFR][1000 genomes]
rs7904261	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7905526	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7918824	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs979528	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9971272	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[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	nsv831846	chr10:45322236-45556370	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831848	chr10:45490176-45667670	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3902673	RASSF4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45539400-45540400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
2	chr10:45539400-45540400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr10:45539400-45541400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr10:45539600-45539800	Enhancers	H1 Cell Line	embryonic stem cell
5	chr10:45539600-45540000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr10:45539600-45540000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr10:45539600-45540400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr10:45539600-45540400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
9	chr10:45539600-45540400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
10	chr10:45539600-45540400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
11	chr10:45539600-45540600	Enhancers	H9 Cell Line	embryonic stem cell

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