Variant report

Variant	rs55894909
Chromosome Location	chr1:225899053-225899054
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:225838410..225840980-chr1:225898015..225900271,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000154380	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10915864	0.83[EUR][1000 genomes]
rs4653654	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832725	chr1:225726998-225910121	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832736	chr1:225815717-225968619	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	esv1795046	chr1:225874059-226091150	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	esv1834932	chr1:225874059-226091150	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	esv1834948	chr1:225874059-226214882	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225882400-225908000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:225889400-225909200	Weak transcription	Aorta	Aorta
3	chr1:225893400-225902400	Weak transcription	Gastric	stomach
4	chr1:225894000-225900400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr1:225894200-225899200	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr1:225896000-225899400	Enhancers	HMEC	breast
7	chr1:225896400-225899200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:225896400-225899400	Enhancers	NHEK	skin
9	chr1:225896600-225899200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr1:225896800-225899400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:225897000-225902600	Weak transcription	Pancreas	Pancrea
12	chr1:225897600-225900000	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr1:225897800-225901200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr1:225898200-225899400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:225898200-225899600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr1:225898400-225899200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr1:225898400-225899200	Flanking Active TSS	A549	lung
18	chr1:225898400-225899200	Enhancers	Osteobl	bone
19	chr1:225898400-225899400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
20	chr1:225898400-225899400	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr1:225898400-225899400	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr1:225898600-225899200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr1:225898600-225899200	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr1:225898600-225899200	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr1:225898600-225899200	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr1:225898600-225899400	Enhancers	H9 Cell Line	embryonic stem cell
27	chr1:225898600-225899400	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr1:225898600-225899400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr1:225898600-225899400	Enhancers	Duodenum Mucosa	Duodenum
30	chr1:225898600-225899400	Enhancers	Hela-S3	cervix
31	chr1:225898600-225899400	Flanking Active TSS	HepG2	liver
32	chr1:225898600-225899600	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr1:225898600-225899600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr1:225898600-225901800	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr1:225899000-225899200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr1:225899000-225899200	Enhancers	Stomach Smooth Muscle	stomach
37	chr1:225899000-225899200	Enhancers	Spleen	Spleen
38	chr1:225899000-225899600	Enhancers	Fetal Intestine Large	intestine
39	chr1:225899000-225899800	Enhancers	Fetal Intestine Small	intestine

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