Variant report

Variant	rs61790708
Chromosome Location	chr4:20593674-20593675
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:20586832..20588489-chr4:20593104..20594930,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs56411745	1.00[EUR][1000 genomes]
rs59286212	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61375089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61399747	1.00[EUR][1000 genomes]
rs61790705	1.00[EUR][1000 genomes]
rs61790710	1.00[EUR][1000 genomes]
rs6816381	1.00[EUR][1000 genomes]
rs7678566	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7686636	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7686831	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][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	nsv829875	chr4:20502895-20680956	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	89 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61790708	C4orf28	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:20492000-20599800	Weak transcription	Aorta	Aorta
2	chr4:20536800-20618600	Weak transcription	Spleen	Spleen
3	chr4:20555600-20599200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:20567000-20604000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:20567200-20605200	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr4:20567200-20617000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr4:20571200-20593800	Weak transcription	Osteobl	bone
8	chr4:20577400-20597200	Weak transcription	Fetal Stomach	stomach
9	chr4:20578000-20617400	Weak transcription	Stomach Smooth Muscle	stomach
10	chr4:20578200-20616800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:20578400-20610000	Weak transcription	Fetal Brain Male	brain
12	chr4:20578600-20594200	Weak transcription	NHLF	lung
13	chr4:20579400-20605600	Weak transcription	Adipose Nuclei	Adipose
14	chr4:20584200-20600200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr4:20589200-20610600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr4:20589200-20620800	Weak transcription	Fetal Muscle Leg	muscle
17	chr4:20590000-20620400	Weak transcription	Fetal Muscle Trunk	muscle
18	chr4:20590800-20618400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr4:20591000-20593800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:20591200-20594200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr4:20591400-20593800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr4:20591400-20593800	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr4:20591400-20594000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr4:20591400-20617000	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr4:20591600-20605200	Weak transcription	NHEK	skin
26	chr4:20591800-20595400	Strong transcription	Placenta Amnion	Placenta Amnion
27	chr4:20592000-20596600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr4:20592400-20594600	Enhancers	Colon Smooth Muscle	Colon
29	chr4:20592400-20596200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:20593000-20619000	Weak transcription	Placenta	Placenta
31	chr4:20593200-20594600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr4:20593400-20594600	Genic enhancers	Fetal Lung	lung
33	chr4:20593400-20594600	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr4:20593400-20594600	Enhancers	NHDF-Ad	bronchial
35	chr4:20593600-20593800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:20593600-20594600	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr4:20593600-20594600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr4:20593600-20594600	Enhancers	Fetal Intestine Small	intestine
39	chr4:20593600-20594600	Enhancers	Fetal Kidney	kidney
40	chr4:20593600-20594600	Enhancers	Rectal Mucosa Donor 29	rectum

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