Variant report

Variant	rs56874575
Chromosome Location	chr3:112855224-112855225
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112854639..112855483-chr3:112989629..112990412,2	MCF-7	breast:
2	chr3:112854981..112855803-chr3:112996965..112997651,4	MCF-7	breast:
3	chr3:112855072..112855606-chr3:112996550..112997471,2	MCF-7	breast:
4	chr3:112854846..112855571-chr3:112974408..112974968,2	MCF-7	breast:
5	chr3:112854746..112855542-chr3:112974048..112975014,2	MCF-7	breast:
6	chr3:112854647..112855593-chr3:113006621..113007668,9	MCF-7	breast:
7	chr3:112854651..112855751-chr3:112994357..112995381,6	MCF-7	breast:
8	chr3:112854694..112855593-chr3:112994517..112995397,2	MCF-7	breast:
9	chr3:112838001..112839541-chr3:112853891..112856823,2	MCF-7	breast:
10	chr3:112770171..112770690-chr3:112855035..112855555,2	MCF-7	breast:
11	chr3:112854840..112855550-chr3:113006986..113007530,3	MCF-7	breast:
12	chr3:112854611..112856025-chr3:113006063..113007441,4	K562	blood:
13	chr3:112854491..112855263-chr3:112965851..112966367,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10934220	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11705763	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11710826	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11713978	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11716287	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1350786	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16860542	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17317973	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17318371	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1881944	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73218127	0.85[ASN][1000 genomes]
rs73223909	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73223910	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73223912	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73223913	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73223917	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7648917	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112847800-112866800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:112849400-112865200	Weak transcription	Fetal Stomach	stomach
3	chr3:112852800-112866800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:112854200-112855400	Enhancers	Colon Smooth Muscle	Colon
5	chr3:112854200-112855800	Enhancers	Rectal Smooth Muscle	rectum
6	chr3:112854800-112855800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr3:112854800-112856000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:112855000-112855600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:112855000-112855800	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr3:112855000-112856000	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr3:112855000-112858000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr3:112855000-112859800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:112855000-112866800	Weak transcription	Pancreas	Pancrea
14	chr3:112855200-112855400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr3:112855200-112858200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr3:112855200-112859800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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

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