Variant report

Variant	rs7745632
Chromosome Location	chr6:26567442-26567443
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:26171710..26174567-chr6:26566701..26569487,2	K562	blood:
2	chr6:26156493..26160609-chr6:26566713..26572551,10	K562	blood:
3	chr6:26536222..26540133-chr6:26565164..26569470,5	K562	blood:
4	chr6:26566443..26568819-chr6:27113127..27115950,2	MCF-7	breast:
5	chr6:26340367..26342068-chr6:26565730..26567496,2	K562	blood:
6	chr6:26567325..26570025-chr6:26570280..26572074,2	MCF-7	breast:
7	chr6:26566413..26579648-chr6:26592370..26599609,38	K562	blood:
8	chr6:26536432..26537991-chr6:26565891..26568258,2	K562	blood:
9	chr6:26553141..26555933-chr6:26567279..26569954,2	MCF-7	breast:
10	chr6:26331657..26333799-chr6:26567368..26569524,2	K562	blood:
11	chr6:26285527..26288388-chr6:26566429..26569428,2	K562	blood:
12	chr6:26471319..26475410-chr6:26567164..26571952,5	K562	blood:
13	chr6:26325462..26328933-chr6:26567431..26570210,5	K562	blood:
14	chr6:26204417..26206259-chr6:26565603..26568682,3	K562	blood:

No data

No data

No data

Variant related genes	Relation type
ENSG00000182952	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000158406	Chromatin interaction
ENSG00000158373	Chromatin interaction
ENSG00000168298	Chromatin interaction
ENSG00000146109	Chromatin interaction
ENSG00000198518	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 12 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1535278	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap]
rs15580	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1796524	1.00[CEU][hapmap];0.91[YRI][hapmap]
rs2145319	0.81[EUR][1000 genomes]
rs2224379	0.89[EUR][1000 genomes]
rs3736780	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs4713007	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs6905163	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6911330	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6922256	0.83[LWK][hapmap];0.89[ASN][1000 genomes]
rs6927012	1.00[CEU][hapmap];0.86[MKK][hapmap];0.90[TSI][hapmap]
rs6929908	0.87[LWK][hapmap];1.00[MKK][hapmap]
rs72844485	0.89[ASN][1000 genomes]
rs9295697	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9366661	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9379892	0.87[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs7745632	RP11-457M11.5	cis	Adipose Subcutaneous	GTEx
rs7745632	ZSCAN23	cis	cerebellum	SCAN
rs7745632	RP11-457M11.5	cis	Esophagus Mucosa	GTEx
rs7745632	RP11-457M11.5	cis	Artery Aorta	GTEx
rs7745632	HIST1H3E	cis	parietal	SCAN
rs7745632	RP11-457M11.5	cis	lung	GTEx
rs7745632	ABT1	cis	cerebellum	SCAN
rs7745632	RP11-457M11.5	cis	Muscle Skeletal	GTEx
rs7745632	HIST1H2BN	cis	parietal	SCAN
rs7745632	HMGN4	cis	parietal	SCAN
rs7745632	RP11-457M11.5	cis	Thyroid	GTEx
rs7745632	HIST1H4F	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26557400-26568400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:26559600-26568200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:26562000-26568400	Weak transcription	Aorta	Aorta
4	chr6:26562200-26568000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:26562200-26568400	Weak transcription	Pancreas	Pancrea
6	chr6:26564400-26568200	Weak transcription	Dnd41	blood
7	chr6:26565200-26568000	Weak transcription	K562	blood
8	chr6:26566000-26568200	Enhancers	HepG2	liver
9	chr6:26566000-26568400	Weak transcription	Placenta	Placenta
10	chr6:26567400-26567600	Active TSS	iPS-20b Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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