Variant report

Variant	rs55936404
Chromosome Location	chr4:173906857-173906858
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10003998	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10014915	0.82[EUR][1000 genomes]
rs12644630	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17254611	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17254681	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17319267	1.00[ASN][1000 genomes]
rs2332610	1.00[ASN][1000 genomes]
rs2610186	1.00[ASN][1000 genomes]
rs28380538	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28483480	0.86[EUR][1000 genomes]
rs28485277	0.83[EUR][1000 genomes]
rs28582871	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28671519	0.84[EUR][1000 genomes]
rs28705797	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28800549	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4547777	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62341884	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62341886	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62341887	0.81[AFR][1000 genomes]
rs72708729	1.00[ASN][1000 genomes]
rs7663630	0.86[EUR][1000 genomes]
rs7678191	1.00[ASN][1000 genomes]
rs7682619	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7693329	0.86[EUR][1000 genomes]
rs9997573	0.90[AMR][1000 genomes];0.98[EUR][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	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173903800-173918000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr4:173904200-173935200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:173904600-173909600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr4:173905000-173907600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:173905000-173908000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:173905000-173908000	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr4:173905000-173908400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr4:173905800-173907000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr4:173906000-173907600	Enhancers	HUVEC	blood vessel
10	chr4:173906200-173907600	Enhancers	H9 Cell Line	embryonic stem cell
11	chr4:173906200-173907800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:173906200-173907800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:173906200-173907800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr4:173906200-173907800	Enhancers	HMEC	breast
15	chr4:173906200-173908000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr4:173906200-173908200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr4:173906200-173908200	Enhancers	NHEK	skin
18	chr4:173906600-173907000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr4:173906600-173907400	Enhancers	Hela-S3	cervix
20	chr4:173906600-173907600	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr4:173906600-173907600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:173906600-173908000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr4:173906800-173907000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr4:173906800-173907200	Enhancers	Placenta Amnion	Placenta Amnion
25	chr4:173906800-173907200	Enhancers	NH-A	brain
26	chr4:173906800-173907600	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr4:173906800-173907600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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