Variant report

Variant	rs9488242
Chromosome Location	chr6:114030316-114030317
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1080429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153430	1.00[ASN][1000 genomes]
rs11153431	1.00[ASN][1000 genomes]
rs12190203	1.00[ASN][1000 genomes]
rs12191218	1.00[ASN][1000 genomes]
rs12200427	1.00[ASN][1000 genomes]
rs12203628	1.00[ASN][1000 genomes]
rs12209179	1.00[ASN][1000 genomes]
rs12213207	1.00[ASN][1000 genomes]
rs1405756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17075401	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1880964	0.85[AFR][1000 genomes]
rs1899787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2588020	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2588022	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2588024	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2588027	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2588029	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2695455	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2695458	0.82[EUR][1000 genomes]
rs2695459	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4615422	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58433452	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59483308	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60437986	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62415964	1.00[ASN][1000 genomes]
rs62415965	1.00[ASN][1000 genomes]
rs62415966	1.00[ASN][1000 genomes]
rs62415969	1.00[ASN][1000 genomes]
rs62415970	1.00[ASN][1000 genomes]
rs62415974	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62416003	0.89[EUR][1000 genomes]
rs62416008	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7741192	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761143	0.81[TSI][hapmap];1.00[ASN][1000 genomes]
rs7762929	0.87[EUR][1000 genomes]
rs7767752	1.00[ASN][1000 genomes]
rs9384880	1.00[ASN][1000 genomes]
rs9387166	1.00[ASN][1000 genomes]
rs9400659	1.00[ASN][1000 genomes]
rs9488243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9488246	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968962	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv981079	chr6:114021110-114039103	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9488242	FAM26F	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114028800-114032200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:114029200-114031400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:114029800-114030400	Enhancers	Colonic Mucosa	Colon
4	chr6:114029800-114031200	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr6:114030200-114031400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:114030200-114040000	Weak transcription	Stomach Mucosa	stomach

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