Variant report

Variant	rs17693955
Chromosome Location	chr9:26797599-26797600
allele	A/G
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	GATA2	chr9:26797599-26797881	SH-SY5Y	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000252580	TF binding region
ENSG00000253400	TF binding region

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10511793	0.85[GIH][hapmap]
rs10812492	0.85[GIH][hapmap]
rs10967594	0.85[GIH][hapmap]
rs12338262	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13288517	0.83[ASN][1000 genomes]
rs16910752	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17693846	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17755607	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17840677	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1880947	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59274950	0.83[EUR][1000 genomes]
rs62542112	0.84[EUR][1000 genomes]
rs62542115	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62542152	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62542155	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs62542156	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62544361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544443	0.83[EUR][1000 genomes]
rs62544450	0.83[EUR][1000 genomes]
rs62544451	0.80[EUR][1000 genomes]
rs62544452	0.83[EUR][1000 genomes]
rs7023230	0.83[EUR][1000 genomes]
rs7024415	0.81[ASN][1000 genomes]
rs7035755	0.92[CEU][hapmap]
rs7039400	0.92[CEU][hapmap]
rs7045241	0.83[YRI][hapmap]
rs7045881	0.92[CEU][hapmap];0.82[GIH][hapmap];0.83[EUR][1000 genomes]
rs7851339	0.81[EUR][1000 genomes]
rs7851582	0.86[EUR][1000 genomes]
rs892571	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026827	chr9:26693515-26904699	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17693955	IFT74	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26796800-26797600	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr9:26796800-26797800	Weak transcription	K562	blood
3	chr9:26797000-26800800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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