Variant report

Variant	rs28682465
Chromosome Location	chr7:26326972-26326973
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:26326887-26327177	H1-neurons	neurons:	n/a	n/a
2	E2F4	chr7:26326866-26327004	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr7:26326804-26327290	H1-neurons	neurons:	n/a	n/a

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:26224902..26232884-chr7:26322008..26332976,29	K562	blood:
2	chr7:26318088..26320982-chr7:26326955..26329632,2	MCF-7	breast:
3	chr7:26224902..26232884-chr7:26322942..26334107,28	K562	blood:
4	chr7:26326936..26328571-chr7:26330645..26332897,2	MCF-7	breast:
5	chr7:26237933..26242335-chr7:26322799..26328116,8	MCF-7	breast:
6	chr7:26324783..26327312-chr7:26329336..26332307,3	K562	blood:
7	chr7:26326513..26327147-chr8:127570217..127571115,2	MCF-7	breast:
8	chr7:26236386..26241823-chr7:26322979..26327139,7	K562	blood:
9	chr7:26233799..26235344-chr7:26326340..26328388,2	K562	blood:
10	chr7:26237304..26242756-chr7:26323009..26328142,11	MCF-7	breast:
11	chr7:26326796..26329794-chr7:26331207..26332723,2	MCF-7	breast:

No data

Variant related genes	Relation type
SNX10	TF binding region
ENSG00000122565	Chromatin interaction
ENSG00000122566	Chromatin interaction
ENSG00000086300	Chromatin interaction
ENSG00000168672	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10227678	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10236496	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10273457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11525780	0.91[EUR][1000 genomes]
rs12671127	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13222190	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13227895	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13228053	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13229994	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13233547	0.82[AMR][1000 genomes]
rs17153429	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2562786	0.86[EUR][1000 genomes]
rs2562795	0.84[EUR][1000 genomes]
rs28413943	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28653301	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28831402	0.87[ASN][1000 genomes]
rs33974860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34272723	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34315589	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34695308	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62448361	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67157703	0.82[EUR][1000 genomes]
rs67229315	0.80[EUR][1000 genomes]
rs6953792	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6970361	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6975395	0.95[EUR][1000 genomes]
rs7797558	0.81[EUR][1000 genomes]
rs9638833	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9639532	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9648323	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs972158	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021308	chr7:26116605-26419720	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv1018971	chr7:26161228-26380361	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv1018352	chr7:26298095-26341825	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26324400-26330800	Weak transcription	Placenta	Placenta
2	chr7:26326400-26330800	Weak transcription	HepG2	liver
3	chr7:26326600-26328400	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr7:26326800-26328600	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr7:26326800-26328600	Enhancers	Monocytes-CD14+_RO01746	blood

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