Variant report

Variant	rs13325080
Chromosome Location	chr3:160413555-160413556
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:19)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:19 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TFAP2A	chr3:160413491-160414388	Hela-S3	cervix:	n/a	chr3:160413817-160413832
2	NFYA	chr3:160413549-160414057	Hela-S3	cervix:	n/a	n/a
3	PRDM1	chr3:160413406-160414145	Hela-S3	cervix:	n/a	n/a
4	RCOR1	chr3:160413142-160414226	Hela-S3	cervix:	n/a	n/a
5	STAT1	chr3:160413466-160414188	Hela-S3	cervix:	n/a	n/a
6	MXI1	chr3:160412928-160414108	Hela-S3	cervix:	n/a	n/a
7	MAX	chr3:160413549-160414116	Hela-S3	cervix:	n/a	n/a
8	TFAP2C	chr3:160412099-160414278	Hela-S3	cervix:	n/a	n/a
9	ZKSCAN1	chr3:160413553-160414137	Hela-S3	cervix:	n/a	n/a
10	EP300	chr3:160413538-160414208	Hela-S3	cervix:	n/a	n/a
11	NFYB	chr3:160413497-160414101	Hela-S3	cervix:	n/a	n/a
12	RFX5	chr3:160413017-160414161	Hela-S3	cervix:	n/a	n/a
13	CEBPB	chr3:160412871-160414297	Hela-S3	cervix:	n/a	n/a
14	MYC	chr3:160413436-160414088	Hela-S3	cervix:	n/a	n/a
15	BRCA1	chr3:160413424-160414257	Hela-S3	cervix:	n/a	n/a
16	JUND	chr3:160413508-160414243	Hela-S3	cervix:	n/a	n/a
17	TCF7L2	chr3:160413466-160414213	Hela-S3	cervix:	n/a	n/a
18	SMC3	chr3:160413539-160414177	Hela-S3	cervix:	n/a	n/a
19	MAFK	chr3:160412871-160414397	Hela-S3	cervix:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160411138..160414125-chr3:160416765..160419218,2	K562	blood:
2	chr3:160411890..160413956-chr3:160423439..160425541,2	K562	blood:
3	chr3:160334213..160336560-chr3:160410896..160413841,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10513554	1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[EUR][1000 genomes]
rs1447612	1.00[CEU][hapmap]
rs16831372	1.00[EUR][1000 genomes]
rs59167416	1.00[EUR][1000 genomes]
rs7634059	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9811521	1.00[EUR][1000 genomes]
rs9814292	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9815207	1.00[EUR][1000 genomes]
rs9825674	1.00[EUR][1000 genomes]
rs9825742	1.00[EUR][1000 genomes]
rs9825763	1.00[EUR][1000 genomes]
rs9830968	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9843371	1.00[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9844901	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9845637	1.00[EUR][1000 genomes]
rs9857284	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9862846	1.00[EUR][1000 genomes]
rs9879415	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160410000-160415600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:160411200-160415400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:160412600-160415600	Weak transcription	Stomach Mucosa	stomach
4	chr3:160413200-160413600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:160413200-160414200	Weak transcription	Placenta	Placenta
6	chr3:160413200-160414200	Weak transcription	NH-A	brain
7	chr3:160413200-160415600	Weak transcription	Pancreas	Pancrea
8	chr3:160413200-160416400	Enhancers	Hela-S3	cervix

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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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