Variant report

Variant	rs568046
Chromosome Location	chr10:97350417-97350418
allele	C/T
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	STAT3	chr10:97350297-97350420	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000214362	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]
rs1053905	0.81[ASW][hapmap]
rs1078641	1.00[CHB][hapmap]
rs10882637	0.81[AMR][1000 genomes]
rs10882638	0.81[ASW][hapmap];0.83[MEX][hapmap]
rs10882640	0.81[ASW][hapmap];0.83[MEX][hapmap]
rs11188397	0.81[ASW][hapmap]
rs11592809	1.00[LWK][hapmap]
rs11595248	1.00[LWK][hapmap]
rs1254093	0.83[ASN][1000 genomes]
rs1270505	0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.81[ASN][1000 genomes]
rs12767751	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12778814	0.81[ASW][hapmap]
rs1409709	0.81[ASW][hapmap];0.83[MEX][hapmap]
rs1409710	1.00[YRI][hapmap]
rs2275272	0.92[LWK][hapmap]
rs2296692	0.81[ASW][hapmap]
rs493193	0.91[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs495998	0.82[ASN][1000 genomes]
rs498055	0.83[ASN][1000 genomes]
rs500470	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs524295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs525807	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs526928	0.82[CHB][hapmap];0.88[MEX][hapmap]
rs527043	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs530773	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs533383	1.00[ASW][hapmap];0.91[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs576080	0.83[ASN][1000 genomes]
rs7070798	1.00[CHB][hapmap]
rs7086071	0.95[CHB][hapmap];0.83[MEX][hapmap]
rs7905711	0.81[AMR][1000 genomes]
rs7918947	0.95[CHB][hapmap];0.83[MEX][hapmap]

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	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs568046	TCTN3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97335200-97373400	Weak transcription	Psoas Muscle	Psoas
2	chr10:97339600-97351400	Weak transcription	Placenta	Placenta

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