Variant report

Variant	rs6475905
Chromosome Location	chr9:26502533-26502534
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10283726	0.97[ASN][1000 genomes]
rs10429467	0.90[ASN][1000 genomes]
rs10511790	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10812408	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10967393	0.87[ASN][1000 genomes]
rs12335816	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1576195	0.86[ASN][1000 genomes]
rs17753877	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2182583	0.86[ASN][1000 genomes]
rs2383695	0.89[ASN][1000 genomes]
rs35414024	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4111166	0.97[ASN][1000 genomes]
rs4311725	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4367638	0.86[ASN][1000 genomes]
rs4492466	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4978076	0.97[ASN][1000 genomes]
rs56041997	0.86[ASN][1000 genomes]
rs62544421	0.86[ASN][1000 genomes]
rs6475906	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475907	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6475911	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475912	0.97[ASN][1000 genomes]
rs7020191	0.97[ASN][1000 genomes]
rs7024081	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7038517	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7468895	0.89[ASN][1000 genomes]
rs9298884	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995049	chr9:26162115-26760535	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892854	chr9:26326100-26749094	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv892855	chr9:26333942-26546080	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
4	nsv1022674	chr9:26453723-26668102	Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1020439	chr9:26453723-26669855	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1022289	chr9:26453723-26670583	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1029668	chr9:26486471-26531692	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6475905	IFT74	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26502000-26502600	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr9:26502400-26505600	Weak transcription	Fetal Muscle Leg	muscle

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