Variant report

Variant	rs9462236
Chromosome Location	chr6:36848810-36848811
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr6:36848700-36848906	MCF10A-Er-Src	breast:	n/a	n/a
2	KAP1	chr6:36848531-36848865	K562	blood:	n/a	n/a
3	SETDB1	chr6:36848509-36849074	U2OS	brain:	n/a	n/a
4	KAP1	chr6:36848574-36848923	HEK293	kidney:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36844707..36849057-chr6:36849516..36855847,7	K562	blood:
2	chr6:36841754..36844106-chr6:36846593..36850227,6	MCF-7	breast:
3	chr6:36827534..36831660-chr6:36847624..36850020,3	K562	blood:
4	chr6:36841727..36844607-chr6:36847192..36849305,3	MCF-7	breast:
5	chr6:36846305..36850172-chr6:36852075..36854803,3	K562	blood:

No data

Variant related genes	Relation type
C6orf89	TF binding region
ENSG00000198663	Chromatin interaction
ENSG00000137168	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1008027	0.83[ASN][1000 genomes]
rs10456446	0.82[ASN][1000 genomes]
rs10498736	0.81[ASN][1000 genomes]
rs10947638	0.88[ASN][1000 genomes]
rs10947639	0.88[ASN][1000 genomes]
rs10947649	0.86[ASN][1000 genomes]
rs11757380	0.82[ASN][1000 genomes]
rs11963298	0.87[ASN][1000 genomes]
rs11970506	0.85[ASN][1000 genomes]
rs12194154	0.90[ASN][1000 genomes]
rs12202755	0.82[ASN][1000 genomes]
rs12213912	0.90[ASN][1000 genomes]
rs13190998	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219894	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219913	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13220210	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16889252	0.82[ASN][1000 genomes]
rs2293391	0.86[ASN][1000 genomes]
rs2293392	0.82[ASN][1000 genomes]
rs34031451	0.94[ASN][1000 genomes]
rs34605868	0.81[ASN][1000 genomes]
rs34651740	0.93[ASN][1000 genomes]
rs35168332	0.96[ASN][1000 genomes]
rs35423793	0.96[ASN][1000 genomes]
rs3798469	0.97[ASN][1000 genomes]
rs3957238	0.82[ASN][1000 genomes]
rs4714023	0.82[ASN][1000 genomes]
rs61006307	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6457961	0.84[ASN][1000 genomes]
rs67540019	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6930737	0.92[ASN][1000 genomes]
rs729659	0.91[ASN][1000 genomes]
rs73418121	0.84[ASN][1000 genomes]
rs73418143	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7757241	0.81[ASN][1000 genomes]
rs9462232	0.94[ASN][1000 genomes]
rs9462233	0.90[ASN][1000 genomes]
rs9462234	0.97[ASN][1000 genomes]
rs9462235	0.95[ASN][1000 genomes]
rs9470422	0.96[ASN][1000 genomes]
rs9470429	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9918461	0.87[ASN][1000 genomes]
rs997674	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9462236	C6orf89	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36843600-36853000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:36843800-36853000	Weak transcription	Osteobl	bone
3	chr6:36847600-36853000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:36847800-36852600	Weak transcription	Fetal Heart	heart
5	chr6:36848000-36853000	Weak transcription	K562	blood

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