Variant report

Variant	rs3014852
Chromosome Location	chr1:153460453-153460454
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:153323483..153340048-chr1:153448254..153469845,61	MCF-7	breast:
2	chr1:153457718..153462195-chr1:153468437..153470953,3	K562	blood:
3	chr1:153320974..153341807-chr1:153456098..153486349,81	MCF-7	breast:
4	chr1:153455880..153459414-chr1:153459858..153461522,3	MCF-7	breast:
5	chr1:153459205..153462195-chr1:153468437..153470623,2	K562	blood:
6	chr1:153449114..153453479-chr1:153459428..153463150,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163218	Chromatin interaction
ENSG00000163220	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs16835344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16835349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16835352	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2986203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2986204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2986205	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2986207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3006432	1.00[AMR][1000 genomes]
rs3014830	1.00[AMR][1000 genomes]
rs3014844	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3118476	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58408424	1.00[AMR][1000 genomes]
rs60387319	1.00[AMR][1000 genomes]
rs73022422	1.00[AMR][1000 genomes]
rs73022487	1.00[AMR][1000 genomes]
rs73022488	1.00[AMR][1000 genomes]
rs73022493	1.00[AMR][1000 genomes]
rs73022495	1.00[AMR][1000 genomes]
rs73024403	1.00[AMR][1000 genomes]
rs73024405	1.00[AMR][1000 genomes]
rs73024413	1.00[AMR][1000 genomes]
rs73024414	1.00[AMR][1000 genomes]
rs73024423	1.00[AMR][1000 genomes]
rs9003	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
5	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
6	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153451000-153467400	Weak transcription	Ovary	ovary
2	chr1:153455400-153462200	Weak transcription	Right Ventricle	heart
3	chr1:153456800-153461400	Weak transcription	Hela-S3	cervix
4	chr1:153457200-153461000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:153457200-153462600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:153457200-153465800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:153458200-153461200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr1:153458400-153461000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr1:153458800-153461200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:153459000-153461000	Weak transcription	Fetal Muscle Leg	muscle
11	chr1:153459000-153461200	Weak transcription	Left Ventricle	heart
12	chr1:153459000-153461200	Weak transcription	Right Atrium	heart
13	chr1:153459000-153461400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr1:153459000-153461400	Weak transcription	Esophagus	oesophagus
15	chr1:153459000-153461400	Weak transcription	NHEK	skin
16	chr1:153459000-153467800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr1:153459200-153462600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:153459400-153460600	Weak transcription	Fetal Heart	heart
19	chr1:153460200-153461800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr1:153460400-153460600	Enhancers	HMEC	breast
21	chr1:153460400-153461200	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr1:153460400-153462600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:153460400-153463000	Enhancers	Skeletal Muscle Male	skeletal muscle

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