Variant report

Variant	rs576890
Chromosome Location	chr6:33214862-33214863
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:33214502-33215159	MCF10A-Er-Src	breast:	n/a	n/a
2	ZNF384	chr6:33214844-33215111	K562	blood:	n/a	n/a

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33172848..33181857-chr6:33213902..33220839,20	K562	blood:
2	chr6:33214841..33218494-chr6:33265669..33268981,6	K562	blood:
3	chr6:33165570..33177648-chr6:33213944..33219124,23	MCF-7	breast:
4	chr6:33170516..33184004-chr6:33208467..33219908,34	K562	blood:
5	chr6:33089176..33090919-chr6:33214635..33216871,2	K562	blood:
6	chr6:32934886..32941336-chr6:33214658..33220920,14	K562	blood:
7	chr6:32936711..32941313-chr6:33214829..33219433,9	K562	blood:
8	chr6:33214775..33224346-chr6:33236521..33248678,40	K562	blood:
9	chr6:33181073..33183564-chr6:33213060..33215558,3	MCF-7	breast:
10	chr6:32941664..32943965-chr6:33214851..33217203,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000272217	TF binding region
HCG25	TF binding region
ENSG00000231500	Chromatin interaction
ENSG00000204256	Chromatin interaction
ENSG00000227057	Chromatin interaction
ENSG00000199036	Chromatin interaction
ENSG00000112473	Chromatin interaction
ENSG00000235863	Chromatin interaction
ENSG00000225463	Chromatin interaction
ENSG00000204228	Chromatin interaction
ENSG00000223837	Chromatin interaction
ENSG00000223501	Chromatin interaction
ENSG00000237441	Chromatin interaction
ENSG00000263756	Chromatin interaction
ENSG00000204231	Chromatin interaction
ENSG00000204257	Chromatin interaction
ENSG00000204227	Chromatin interaction
ENSG00000202441	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs120626	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs213199	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs213201	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs213202	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs213204	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs213206	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs213216	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs446735	0.91[ASN][1000 genomes]
rs456261	0.84[ASN][1000 genomes]
rs457565	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs463260	0.90[ASN][1000 genomes]
rs464865	0.90[ASN][1000 genomes]
rs469064	0.89[ASN][1000 genomes]
rs474353	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9277962	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][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	nsv462893	chr6:33142539-33256471	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv602830	chr6:33142539-33256471	Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
3	nsv830634	chr6:33161217-33330745	Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
4	nsv462894	chr6:33174783-33254665	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	87 gene(s)	inside rSNPs	diseases
5	nsv602831	chr6:33174783-33254665	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	87 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs576890	HLA-DPA1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33208200-33216000	Weak transcription	Right Atrium	heart
2	chr6:33210000-33215800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr6:33214600-33215400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:33214800-33215000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:33214800-33215800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:33214800-33215800	Weak transcription	HMEC	breast

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