Variant report

Variant	rs6098004
Chromosome Location	chr20:53087935-53087936
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:11)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr20:53087652-53088038	HCT-116	colon:	n/a	n/a
2	MYC	chr20:53087909-53087972	MCF-7	breast:	n/a	n/a
3	CTCF	chr20:53087880-53088030	HepG2	liver:	n/a	n/a
4	POLR2A	chr20:53087900-53087984	MCF-7	breast:	n/a	n/a
5	POLR2A	chr20:53087914-53087940	ProgFib	skin:	n/a	n/a
6	POLR2A	chr20:53087898-53087982	MCF-7	breast:	n/a	n/a
7	USF1	chr20:53087752-53088098	H1-hESC	embryonic stem cell:	n/a	n/a
8	MAX	chr20:53087885-53088085	NB4	blood:	n/a	n/a
9	USF2	chr20:53087734-53087956	H1-hESC	embryonic stem cell:	n/a	n/a
10	TEAD4	chr20:53087799-53088106	A549	lung:	n/a	n/a
11	USF1	chr20:53087772-53088014	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:53076124..53079561-chr20:53086768..53089276,3	MCF-7	breast:
2	chr20:53071006..53073926-chr20:53086546..53089088,2	MCF-7	breast:
3	chr20:53085736..53089273-chr20:53091185..53093205,3	MCF-7	breast:
4	chr20:52967821..52970666-chr20:53086296..53089012,2	MCF-7	breast:
5	chr17:56736303..56736887-chr20:53087682..53088529,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs59828650	1.00[AMR][1000 genomes]
rs6023268	1.00[AMR][1000 genomes]
rs6091883	1.00[AMR][1000 genomes]
rs6098001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73273265	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53084800-53091800	Weak transcription	Aorta	Aorta
2	chr20:53086800-53088000	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr20:53087200-53088000	Enhancers	Fetal Muscle Trunk	muscle
4	chr20:53087800-53088000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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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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