Variant report

Variant	rs13183347
Chromosome Location	chr5:112337959-112337960
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12517398	0.85[EUR][1000 genomes]
rs12654474	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13156493	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13171553	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13171773	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13176362	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13177101	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13186334	0.82[EUR][1000 genomes]
rs13445	0.85[EUR][1000 genomes]
rs1549182	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17312754	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17372511	0.83[AFR][1000 genomes]
rs4334876	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4705529	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4705531	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4705744	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4778	0.83[EUR][1000 genomes]
rs7670	0.82[EUR][1000 genomes]
rs7701781	0.81[AMR][1000 genomes]
rs9784647	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1028759	chr5:112300490-112358514	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv882717	chr5:112336588-112408944	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13183347	DCP2	cis	Skin Sun Exposed Lower leg	GTEx
rs13183347	DCP2	Cis_1M	lymphoblastoid	RTeQTL
rs13183347	MCC	cis	Whole Blood	GTEx
rs13183347	DCP2	cis	Nerve Tibial	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112314000-112338200	Weak transcription	Gastric	stomach
2	chr5:112314200-112338200	Weak transcription	Aorta	Aorta
3	chr5:112314200-112341000	Weak transcription	Small Intestine	intestine
4	chr5:112314200-112349600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr5:112314200-112356800	Weak transcription	Stomach Mucosa	stomach
6	chr5:112314200-112362600	Weak transcription	Colonic Mucosa	Colon
7	chr5:112314400-112338400	Weak transcription	Stomach Smooth Muscle	stomach
8	chr5:112314800-112349200	Weak transcription	Brain Substantia Nigra	brain
9	chr5:112315600-112339400	Weak transcription	Hela-S3	cervix
10	chr5:112315600-112362600	Weak transcription	Brain Angular Gyrus	brain
11	chr5:112317000-112338200	Weak transcription	Left Ventricle	heart
12	chr5:112317800-112366200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr5:112318400-112365600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr5:112319800-112363800	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr5:112320000-112364200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:112320200-112338200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr5:112320200-112338200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr5:112320600-112362600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr5:112321200-112364800	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr5:112321400-112363800	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr5:112321600-112353800	Weak transcription	Fetal Heart	heart
22	chr5:112322200-112341000	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr5:112322600-112362400	Weak transcription	Psoas Muscle	Psoas
24	chr5:112322800-112362400	Weak transcription	Esophagus	oesophagus
25	chr5:112324800-112369800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr5:112327400-112340600	Strong transcription	Primary B cells from cord blood	blood
27	chr5:112327800-112364600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr5:112328800-112341800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr5:112329400-112356800	Strong transcription	Primary B cells from peripheral blood	blood
30	chr5:112330200-112338200	Weak transcription	Spleen	Spleen
31	chr5:112330200-112362800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:112332400-112348600	Weak transcription	Brain Hippocampus Middle	brain
33	chr5:112332400-112352400	Strong transcription	Dnd41	blood
34	chr5:112332400-112355800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr5:112332400-112372600	Weak transcription	Fetal Brain Male	brain
36	chr5:112332600-112338800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr5:112332600-112349000	Weak transcription	Fetal Brain Female	brain
38	chr5:112332800-112352200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
39	chr5:112333000-112338200	Weak transcription	Ovary	ovary
40	chr5:112333000-112349400	Weak transcription	NHLF	lung
41	chr5:112333000-112359800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr5:112333200-112362400	Weak transcription	Right Ventricle	heart
43	chr5:112333800-112342000	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr5:112334000-112342200	Strong transcription	Primary T helper cells PMA-I stimulated	--
45	chr5:112334000-112342200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr5:112334000-112342400	Strong transcription	GM12878-XiMat	blood
47	chr5:112334000-112365200	Strong transcription	Placenta	Placenta
48	chr5:112334200-112344000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr5:112334200-112350400	Strong transcription	Fetal Intestine Large	intestine
50	chr5:112334200-112350400	Strong transcription	Rectal Mucosa Donor 29	rectum

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