Variant report

Variant	rs17758799
Chromosome Location	chr18:43859288-43859289
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C18orf25-1	chr18:43857448-43859388	NONHSAT059131

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11664314	1.00[JPT][hapmap]
rs11664743	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11874712	1.00[JPT][hapmap]
rs12454696	0.84[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs55880723	0.83[ASN][1000 genomes]
rs718515	0.82[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7240076	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs8089153	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs8095374	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9947316	1.00[CHB][hapmap];0.92[YRI][hapmap]
rs9955853	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[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	nsv1064031	chr18:43782309-43878806	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17758799	C18orf25	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43831400-43863200	Weak transcription	Fetal Intestine Small	intestine
2	chr18:43841000-43861400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr18:43841000-43864200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr18:43842200-43869800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr18:43844200-43861400	Weak transcription	Hela-S3	cervix
6	chr18:43845000-43861400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr18:43845600-43863000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr18:43845600-43863600	Weak transcription	Brain Anterior Caudate	brain
9	chr18:43847200-43863200	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr18:43847800-43861200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr18:43849000-43861200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr18:43849400-43861400	Weak transcription	Liver	Liver
13	chr18:43852200-43879000	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr18:43853000-43877800	Weak transcription	Primary T cells from cord blood	blood
15	chr18:43854400-43863000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr18:43854400-43863200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr18:43854400-43863200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr18:43854600-43861400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr18:43854600-43863000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr18:43855400-43863200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr18:43855600-43863000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr18:43856400-43859400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr18:43856400-43859600	Enhancers	NHDF-Ad	bronchial
24	chr18:43857000-43859400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr18:43857000-43859400	Enhancers	NHLF	lung
26	chr18:43857000-43877800	Weak transcription	Aorta	Aorta
27	chr18:43857600-43859400	Enhancers	Muscle Satellite Cultured Cells	--
28	chr18:43857600-43859400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr18:43857800-43859400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr18:43857800-43859400	Enhancers	HSMM	muscle
31	chr18:43857800-43859600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr18:43857800-43859800	Enhancers	Fetal Heart	heart
33	chr18:43858000-43859400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr18:43858000-43859600	Enhancers	HSMMtube	muscle
35	chr18:43858000-43859800	Enhancers	Fetal Muscle Leg	muscle
36	chr18:43858200-43860200	Enhancers	K562	blood
37	chr18:43858200-43863000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr18:43858400-43859800	Enhancers	Placenta	Placenta
39	chr18:43858400-43863200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr18:43858600-43861400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr18:43858800-43861200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr18:43858800-43862800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr18:43858800-43863000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr18:43858800-43863000	Weak transcription	Psoas Muscle	Psoas
45	chr18:43859000-43859400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr18:43859000-43861200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr18:43859000-43861400	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr18:43859000-43861600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr18:43859000-43863200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr18:43859000-43863200	Weak transcription	Spleen	Spleen

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