Variant report

Variant	rs71559087
Chromosome Location	chr6:28491075-28491076
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:28491040-28491190	GM12874	blood:	n/a	n/a
2	CTCF	chr6:28490960-28491110	GM12870	blood:	n/a	n/a
3	BACH1	chr6:28491054-28491255	H1-hESC	embryonic stem cell:	n/a	n/a
4	RAD21	chr6:28490988-28491300	H1-hESC	embryonic stem cell:	n/a	n/a
5	CTCF	chr6:28490960-28491110	GM12873	blood:	n/a	n/a
6	CTCF	chr6:28491040-28491190	HEK293	kidney:	n/a	n/a
7	CTCF	chr6:28491020-28491170	WERI-Rb-1	eye:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr6:28490091..28492168-chr6:28493727..28495713,2	MCF-7	breast:
2	chr6:28490306..28492074-chr6:28498929..28501971,3	K562	blood:
3	chr6:28490306..28492074-chr6:28498929..28501092,2	K562	blood:
4	chr6:28488832..28491133-chr6:28492091..28495083,2	K562	blood:

No data

Variant related genes	Relation type
GPX5	TF binding region
ENSG00000224586	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs34083373	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34409925	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34979126	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35814746	1.00[AMR][1000 genomes]
rs35844460	0.82[EUR][1000 genomes]
rs35889911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35901019	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35999889	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71559077	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71559084	1.00[AMR][1000 genomes];0.82[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	nsv462666	chr6:28417222-28574415	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv601210	chr6:28417222-28574415	Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv1020689	chr6:28449137-28635171	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv830621	chr6:28473951-28675709	Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv601211	chr6:28483482-28521316	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28489400-28491800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:28489600-28492200	Enhancers	Primary T cells from cord blood	blood
3	chr6:28490000-28493600	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr6:28490200-28491200	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr6:28490200-28491600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:28490200-28491600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:28490200-28491800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr6:28490400-28491200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:28490400-28491600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:28490400-28491600	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr6:28490400-28491600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:28490400-28491600	Enhancers	Fetal Thymus	thymus
13	chr6:28490400-28491800	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:28490600-28491200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:28490600-28491400	Enhancers	K562	blood
16	chr6:28490600-28491600	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr6:28490600-28491600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:28490600-28491600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr6:28490600-28491600	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr6:28490800-28491600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:28490800-28491800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
22	chr6:28491000-28491400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr6:28491000-28491600	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood

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