Variant report

Variant	rs28671320
Chromosome Location	chr3:112874514-112874515
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112872686..112875261-chr3:112875839..112878613,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240057	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10934221	0.84[ASN][1000 genomes]
rs11712279	0.84[ASN][1000 genomes]
rs11716459	0.84[ASN][1000 genomes]
rs16860564	0.88[ASN][1000 genomes]
rs16860599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1881941	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1881945	0.96[ASN][1000 genomes]
rs1920079	0.87[ASN][1000 genomes]
rs1920081	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34701192	0.84[ASN][1000 genomes]
rs62264167	0.88[ASN][1000 genomes]
rs73220032	0.81[ASN][1000 genomes]
rs73223921	0.85[ASN][1000 genomes]
rs7619876	0.88[ASN][1000 genomes]
rs9822730	0.84[ASN][1000 genomes]
rs9824380	0.88[ASN][1000 genomes]
rs9845807	0.84[ASN][1000 genomes]

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	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
2	nsv829677	chr3:112857075-113038987	Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1003511	chr3:112858775-112989045	Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112869600-112874600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:112871000-112876600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:112871000-112881400	Weak transcription	Fetal Lung	lung
4	chr3:112871400-112875800	Weak transcription	Fetal Stomach	stomach
5	chr3:112871400-112876000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:112871400-112876000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:112871600-112875200	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:112872400-112876000	Weak transcription	Adipose Nuclei	Adipose
9	chr3:112872800-112874600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:112873000-112875600	Weak transcription	Fetal Kidney	kidney
11	chr3:112873000-112875800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:112873000-112875800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr3:112873000-112876000	Weak transcription	HSMMtube	muscle
14	chr3:112873000-112876200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr3:112873200-112874800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:112873200-112874800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:112873200-112875800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr3:112873400-112874800	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:112873400-112876000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:112874400-112874600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr3:112874400-112874800	Active TSS	Placenta	Placenta

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