Variant report

Variant	rs45564936
Chromosome Location	chr10:50143439-50143440
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr10:50143397-50143447	GM19239	blood:	n/a
2	chr10:50143397-50143447	NHBE	bronchial:	n/a
3	chr10:50143397-50143447	HNPCEpiC	eye:	n/a
4	chr10:50143397-50143447	SKMC	muscle:	n/a
5	chr10:50143397-50143447	HRCEpiC	kidney:	n/a
6	chr10:50143397-50143447	NHDF-neo	bronchial:	n/a
7	chr10:50143397-50143447	K562	blood:	n/a
8	chr10:50143397-50143447	PrEC	prostate:	n/a
9	chr10:50143397-50143447	BJ	skin:	n/a
10	chr10:50143397-50143447	NT2-D1	testis:	n/a
11	chr10:50143397-50143447	HCPEpiC	choroid plexus:	n/a
12	chr10:50143397-50143447	SK-N-SH	brain:	n/a
13	chr10:50143397-50143447	HPAEpiC	pulmonary alveolar:	n/a
14	chr10:50143397-50143447	HIPEpiC	eye:	n/a
15	chr10:50143397-50143447	IMR90	lung:	fetal
16	chr10:50143397-50143447	HRPEpiC	eye:	n/a
17	chr10:50143397-50143447	LNCaP	prostate:	n/a
18	chr10:50143397-50143447	BE2_C	brain:	n/a
19	chr10:50143397-50143447	PFSK-1	brain:	n/a
20	chr10:50143397-50143447	U87	brain:	n/a
21	chr10:50143397-50143447	HEK293	kidney:	embryo
22	chr10:50143397-50143447	HRE	kidney:	n/a
23	chr10:50143397-50143447	Caco-2	colon:	n/a
24	chr10:50143397-50143447	ECC-1	luminal epithelium:	n/a
25	chr10:50143397-50143447	GM12891	blood:	n/a
26	chr10:50143397-50143447	Hepatocyte	liver:	n/a
27	chr10:50143397-50143447	Hela-S3	cervix:	n/a
28	chr10:50143397-50143447	HCF	heart:	n/a
29	chr10:50143397-50143447	GM12878	blood:	n/a
30	chr10:50143397-50143447	ovcar-3	ovarian:	n/a
31	chr10:50143397-50143447	AG09309	skin:	n/a
32	chr10:50143397-50143447	PANC-1	pancreas:	n/a
33	chr10:50143397-50143447	HCT-116	colon:	n/a
34	chr10:50143397-50143447	HL-60	blood:	n/a
35	chr10:50143397-50143447	GM06990	blood:	n/a
36	chr10:50143397-50143447	CMK	blood:	n/a
37	chr10:50143397-50143447	NH-A	brain:	n/a
38	chr10:50143397-50143447	NB4	blood:	n/a
39	chr10:50143397-50143447	AoSMC	blood vessel:	n/a
40	chr10:50143397-50143447	RPTEC	kidney:	n/a
41	chr10:50143397-50143447	ProgFib	skin:	n/a
42	chr10:50143397-50143447	AG04450	lung:	fetal
43	chr10:50143397-50143447	HMEC	breast:	n/a
44	chr10:50143397-50143447	HEEpiC	esophagus:	n/a
45	chr10:50143397-50143447	Jurkat	blood:	n/a
46	chr10:50143397-50143447	SAEC	small airway:	n/a
47	chr10:50143397-50143447	SK-N-SH_RA	brain:	n/a
48	chr10:50143397-50143447	HCM	heart:	n/a
49	chr10:50143397-50143447	AG10803	skin:	n/a
50	chr10:50143397-50143447	GM12892	blood:	n/a

No data

Variant related genes	Relation type
LRRC18	CpG island
ENSG00000241577	CpG island

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs41283297	0.90[AFR][1000 genomes]
rs59965106	0.90[AFR][1000 genomes]
rs60337852	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv831865	chr10:49994254-50164239	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50121000-50155800	Weak transcription	Primary T cells from cord blood	blood
2	chr10:50125400-50154400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr10:50127800-50147000	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr10:50127800-50150400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr10:50127800-50150600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:50130800-50143600	Strong transcription	Primary B cells from cord blood	blood
7	chr10:50134600-50160400	Weak transcription	Right Atrium	heart
8	chr10:50135400-50149800	Weak transcription	Spleen	Spleen
9	chr10:50135600-50145800	Weak transcription	GM12878-XiMat	blood
10	chr10:50138600-50145400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:50139800-50143600	Weak transcription	Pancreas	Pancrea
12	chr10:50142000-50146400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:50142600-50143600	Flanking Active TSS	Fetal Lung	lung
14	chr10:50142600-50145800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr10:50142600-50148000	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:50142800-50143600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr10:50142800-50143600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr10:50142800-50143600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr10:50143000-50143600	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr10:50143000-50143600	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr10:50143000-50143600	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr10:50143000-50143600	Active TSS	Brain Anterior Caudate	brain
23	chr10:50143000-50145000	Weak transcription	Primary B cells from peripheral blood	blood
24	chr10:50143200-50143600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr10:50143200-50143600	Flanking Active TSS	Brain Germinal Matrix	brain
26	chr10:50143200-50143800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:50143200-50143800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr10:50143200-50144000	Flanking Active TSS	Dnd41	blood
29	chr10:50143400-50143600	Flanking Bivalent TSS/Enh	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:50143400-50143600	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:50143400-50143600	Enhancers	Fetal Stomach	stomach
32	chr10:50143400-50148800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr10:50143400-50153200	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links