Variant report

Variant	rs7249553
Chromosome Location	chr19:39441589-39441590
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:39436715-39441620	PANC-1	pancreas:	n/a	n/a
2	POLR2A	chr19:39441563-39442378	HepG2	liver:	n/a	n/a
3	POLR2A	chr19:39428415-39444124	PANC-1	pancreas:	n/a	n/a
4	POLR2A	chr19:39432173-39442255	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:39421083..39425618-chr19:39435632..39441753,7	MCF-7	breast:
2	chr19:39420306..39422739-chr19:39440304..39443002,2	K562	blood:

Variant related genes	Relation type
SARS2	TF binding region
ENSG00000269547	TF binding region
FBXO17	TF binding region
ENSG00000104835	Chromatin interaction
ENSG00000128626	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs28479912	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7246128	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7248334	0.84[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	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7249553	FBXO27	cis	Esophagus Mucosa	GTEx
rs7249553	CTB-189B5.3	cis	Esophagus Mucosa	GTEx

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39422600-39453000	Weak transcription	HSMMtube	muscle
2	chr19:39432400-39441800	Strong transcription	A549	lung
3	chr19:39435600-39442800	Weak transcription	Fetal Kidney	kidney
4	chr19:39435800-39453000	Weak transcription	K562	blood
5	chr19:39437200-39443000	Weak transcription	HSMM	muscle
6	chr19:39438200-39447000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr19:39438400-39453000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr19:39439200-39452600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr19:39439400-39442800	Weak transcription	HepG2	liver
10	chr19:39439600-39446200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr19:39441000-39442400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr19:39441000-39443400	Weak transcription	HMEC	breast
13	chr19:39441000-39444400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr19:39441000-39453000	Weak transcription	Aorta	Aorta
15	chr19:39441000-39459200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr19:39441200-39441600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr19:39441200-39442400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr19:39441200-39442800	Weak transcription	Liver	Liver
19	chr19:39441200-39442800	Weak transcription	Fetal Intestine Large	intestine
20	chr19:39441200-39442800	Weak transcription	Fetal Muscle Leg	muscle
21	chr19:39441200-39443200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr19:39441200-39443400	Weak transcription	NH-A	brain
23	chr19:39441200-39446400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr19:39441200-39447600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr19:39441200-39448200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr19:39441200-39449200	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr19:39441200-39449200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr19:39441200-39450400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr19:39441200-39452800	Weak transcription	Rectal Smooth Muscle	rectum
30	chr19:39441200-39453000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr19:39441200-39453000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr19:39441200-39453000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr19:39441200-39453000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr19:39441200-39453000	Weak transcription	Brain Hippocampus Middle	brain
35	chr19:39441200-39453000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr19:39441200-39453000	Weak transcription	Lung	lung
37	chr19:39441200-39453000	Weak transcription	Pancreas	Pancrea
38	chr19:39441200-39453000	Weak transcription	Osteobl	bone
39	chr19:39441200-39455800	Weak transcription	Psoas Muscle	Psoas
40	chr19:39441200-39459400	Weak transcription	Fetal Lung	lung
41	chr19:39441200-39465200	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr19:39441200-39465200	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr19:39441200-39465200	Weak transcription	NHLF	lung
44	chr19:39441200-39465400	Weak transcription	Right Atrium	heart
45	chr19:39441400-39441600	Weak transcription	Fetal Stomach	stomach
46	chr19:39441400-39441800	Weak transcription	Fetal Muscle Trunk	muscle
47	chr19:39441400-39442800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr19:39441400-39443000	Strong transcription	Fetal Intestine Small	intestine
49	chr19:39441400-39444200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr19:39441400-39445800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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