Variant report

Variant	rs55734017
Chromosome Location	chr5:154205230-154205231
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10515726	0.84[AMR][1000 genomes]
rs11167702	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3867430	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56226335	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6886571	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][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	nsv830521	chr5:154147567-154244266	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55734017	LARP1	cis	Whole Blood	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154169400-154205800	Strong transcription	Skeletal Muscle Female	skeletal muscle
2	chr5:154174000-154212200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:154181000-154211600	Strong transcription	Brain Hippocampus Middle	brain
4	chr5:154182000-154211400	Strong transcription	Left Ventricle	heart
5	chr5:154187000-154211400	Strong transcription	Fetal Stomach	stomach
6	chr5:154189400-154206000	Strong transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:154191600-154208600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr5:154191800-154206200	Strong transcription	Brain Anterior Caudate	brain
9	chr5:154191800-154211600	Strong transcription	Adipose Nuclei	Adipose
10	chr5:154193000-154211800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:154194000-154209400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr5:154195600-154208000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr5:154195600-154214400	Weak transcription	Small Intestine	intestine
14	chr5:154196000-154229200	Weak transcription	Psoas Muscle	Psoas
15	chr5:154196400-154214000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr5:154196600-154208000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr5:154196800-154207400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr5:154197600-154208400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr5:154197600-154214400	Weak transcription	HUVEC	blood vessel
20	chr5:154197800-154214400	Weak transcription	Hela-S3	cervix
21	chr5:154198400-154207200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr5:154198600-154205800	Strong transcription	Colon Smooth Muscle	Colon
23	chr5:154198600-154206400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr5:154198600-154211200	Strong transcription	Stomach Smooth Muscle	stomach
25	chr5:154198600-154211400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr5:154199000-154205800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr5:154199400-154207600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr5:154199400-154209000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr5:154199400-154214400	Weak transcription	Right Atrium	heart
30	chr5:154200200-154209200	Strong transcription	Fetal Muscle Trunk	muscle
31	chr5:154200200-154214400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:154200400-154209000	Weak transcription	Primary B cells from cord blood	blood
33	chr5:154200800-154214000	Weak transcription	Fetal Heart	heart
34	chr5:154201000-154207400	Weak transcription	Fetal Kidney	kidney
35	chr5:154201000-154228000	Weak transcription	Fetal Brain Male	brain
36	chr5:154201200-154208600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr5:154202400-154208000	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr5:154202400-154208800	Strong transcription	Fetal Muscle Leg	muscle
39	chr5:154203200-154206000	Strong transcription	Fetal Lung	lung
40	chr5:154203200-154207400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr5:154203400-154208800	Weak transcription	Colonic Mucosa	Colon
42	chr5:154203400-154209000	Weak transcription	Stomach Mucosa	stomach
43	chr5:154203400-154229000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr5:154203600-154207200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr5:154203600-154214400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr5:154203800-154206800	Weak transcription	HMEC	breast
47	chr5:154203800-154208000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr5:154203800-154208400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr5:154203800-154210600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr5:154203800-154211400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland

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