Variant report

Variant	rs10123827
Chromosome Location	chr9:7804131-7804132
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	POLR2A	chr9:7804032-7804251	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:7799234..7801006-chr9:7803673..7806734,3	MCF-7	breast:

Variant related genes	Relation type
TMEM261	TF binding region
ENSG00000137038	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10120253	0.82[AFR][1000 genomes]
rs10121374	0.91[AFR][1000 genomes]
rs10976584	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976585	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976586	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976587	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976590	0.83[LWK][hapmap];1.00[YRI][hapmap]
rs10976591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976593	1.00[EUR][1000 genomes]
rs10976595	0.93[EUR][1000 genomes]
rs10976597	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10976598	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12238126	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1332923	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2210522	0.90[ASN][1000 genomes]
rs2297554	1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.93[EUR][1000 genomes]
rs72697242	0.93[EUR][1000 genomes]
rs72697244	0.93[EUR][1000 genomes]
rs72697248	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72697262	0.93[EUR][1000 genomes]
rs72697263	1.00[EUR][1000 genomes]
rs72697264	0.93[EUR][1000 genomes]
rs7470720	0.93[EUR][1000 genomes];0.88[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	nsv1033077	chr9:7358832-7990735	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv539977	chr9:7358832-7990735	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv613266	chr9:7588854-7901308	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv995116	chr9:7682729-8065192	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv892213	chr9:7770942-7856992	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv892214	chr9:7774180-7822486	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv892215	chr9:7799787-7889991	Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7800000-7809800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:7800200-7810600	Weak transcription	Stomach Mucosa	stomach
3	chr9:7802600-7809000	Weak transcription	Thymus	Thymus
4	chr9:7802600-7809600	Weak transcription	Fetal Thymus	thymus

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