Variant report

Variant	rs4345353
Chromosome Location	chr5:40741508-40741509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10060234	0.84[CEU][hapmap]
rs1057631	1.00[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10737963	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13155157	0.81[EUR][1000 genomes]
rs13155724	0.85[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13158060	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13167906	0.86[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13186505	1.00[ASN][1000 genomes]
rs171605	0.83[CEU][hapmap]
rs2055645	1.00[ASN][1000 genomes]
rs249414	0.84[CEU][hapmap]
rs249422	0.84[CEU][hapmap]
rs249425	0.84[CEU][hapmap]
rs29742	0.82[CEU][hapmap]
rs29743	0.84[CEU][hapmap]
rs29744	0.84[CEU][hapmap]
rs34783322	1.00[ASN][1000 genomes]
rs35867196	1.00[ASN][1000 genomes]
rs4266456	1.00[ASN][1000 genomes]
rs4304113	1.00[ASN][1000 genomes]
rs434778	0.84[CEU][hapmap]
rs4383756	0.84[CEU][hapmap]
rs447810	0.84[CEU][hapmap]
rs6451535	0.84[CEU][hapmap]
rs72747942	1.00[ASN][1000 genomes]
rs7724201	1.00[ASN][1000 genomes]
rs7726237	0.84[CEU][hapmap]
rs954686	1.00[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4345353	LEF1	trans	lymphoblastoid	seeQTL
rs4345353	RPL37	Cis_1M	lymphoblastoid	RTeQTL
rs4345353	TTC33	Cis_1M	lymphoblastoid	RTeQTL
rs4345353	RPL37	cis	cerebellum	SCAN

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40709600-40745000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr5:40722800-40755200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:40723000-40741600	Weak transcription	Lung	lung
4	chr5:40728200-40745600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:40734200-40741600	Weak transcription	Psoas Muscle	Psoas
6	chr5:40736000-40741600	Weak transcription	HepG2	liver
7	chr5:40736000-40747200	Weak transcription	HMEC	breast
8	chr5:40736000-40755200	Weak transcription	Pancreas	Pancrea
9	chr5:40736200-40754200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr5:40736400-40746400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr5:40736400-40747000	Weak transcription	Small Intestine	intestine
12	chr5:40736400-40753800	Weak transcription	Fetal Heart	heart
13	chr5:40736400-40754200	Weak transcription	Gastric	stomach
14	chr5:40736400-40754200	Weak transcription	NHLF	lung
15	chr5:40736600-40754200	Weak transcription	Osteobl	bone
16	chr5:40738000-40754200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr5:40738800-40741800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:40738800-40741800	Strong transcription	Brain Hippocampus Middle	brain
19	chr5:40738800-40742000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr5:40739000-40741600	ZNF genes & repeats	Fetal Lung	lung
21	chr5:40739000-40742000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr5:40739000-40742000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr5:40739000-40742800	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr5:40739200-40741800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr5:40739200-40742000	ZNF genes & repeats	Primary T cells from cord blood	blood
26	chr5:40739200-40742000	ZNF genes & repeats	Fetal Brain Female	brain
27	chr5:40739400-40741800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr5:40739400-40741800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr5:40739400-40741800	ZNF genes & repeats	Fetal Intestine Large	intestine
30	chr5:40739400-40741800	Strong transcription	Placenta Amnion	Placenta Amnion
31	chr5:40739400-40742000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr5:40739400-40742000	Strong transcription	Duodenum Mucosa	Duodenum
33	chr5:40739400-40742000	Strong transcription	Left Ventricle	heart
34	chr5:40739400-40742000	Strong transcription	Thymus	Thymus
35	chr5:40739400-40742000	ZNF genes & repeats	GM12878-XiMat	blood
36	chr5:40739400-40742200	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr5:40739400-40742200	Strong transcription	Brain Anterior Caudate	brain
38	chr5:40739400-40742200	ZNF genes & repeats	Fetal Intestine Small	intestine
39	chr5:40739400-40742800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr5:40739400-40743200	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr5:40739400-40754200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr5:40739600-40741800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
43	chr5:40739600-40741800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
44	chr5:40739600-40741800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
45	chr5:40739600-40741800	ZNF genes & repeats	Fetal Muscle Leg	muscle
46	chr5:40739600-40741800	ZNF genes & repeats	Dnd41	blood
47	chr5:40739600-40742600	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr5:40739600-40742600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr5:40739800-40743200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr5:40739800-40754200	Weak transcription	NHEK	skin

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