Variant report

Variant	rs3759871
Chromosome Location	chr15:44943757-44943758
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs16965650	0.83[CHD][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs2555355	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs58231277	0.87[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	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3759871	LRRC57	cis	cerebellum	SCAN
rs3759871	ZSCAN29	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44842000-44951600	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:44867400-44954600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:44871200-44951200	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:44890000-44954800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:44900800-44955000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:44916200-44947000	Weak transcription	Esophagus	oesophagus
7	chr15:44918000-44952800	Strong transcription	Primary B cells from peripheral blood	blood
8	chr15:44925400-44947400	Weak transcription	HSMMtube	muscle
9	chr15:44926400-44952800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:44930200-44947000	Weak transcription	A549	lung
11	chr15:44935800-44950200	Strong transcription	Primary T cells from cord blood	blood
12	chr15:44936400-44951600	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr15:44936800-44953000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:44937000-44949800	Strong transcription	Fetal Lung	lung
15	chr15:44937000-44953000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:44937400-44947000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr15:44937400-44949800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr15:44937400-44952000	Strong transcription	Fetal Thymus	thymus
19	chr15:44937400-44952800	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr15:44937400-44953000	Strong transcription	Duodenum Mucosa	Duodenum
21	chr15:44937800-44944600	Strong transcription	Duodenum Smooth Muscle	Duodenum
22	chr15:44937800-44952200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr15:44938000-44944600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr15:44938000-44950200	Strong transcription	Fetal Muscle Trunk	muscle
25	chr15:44938000-44951800	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr15:44938000-44952000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr15:44938000-44952000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr15:44938000-44952200	Strong transcription	Fetal Intestine Large	intestine
29	chr15:44938000-44952800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr15:44938000-44952800	Strong transcription	Fetal Muscle Leg	muscle
31	chr15:44938200-44944800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:44938200-44949000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr15:44938200-44949200	Strong transcription	Brain Anterior Caudate	brain
34	chr15:44938200-44949800	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr15:44938200-44951800	Strong transcription	Liver	Liver
36	chr15:44938400-44943800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr15:44938400-44944600	Strong transcription	Thymus	Thymus
38	chr15:44938400-44944800	Strong transcription	Placenta	Placenta
39	chr15:44938400-44947000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:44938400-44947800	Strong transcription	Lung	lung
41	chr15:44938400-44949400	Strong transcription	Skeletal Muscle Female	skeletal muscle
42	chr15:44938400-44949600	Strong transcription	Adipose Nuclei	Adipose
43	chr15:44938400-44952800	Strong transcription	HUES48 Cell Line	embryonic stem cell
44	chr15:44938400-44952800	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr15:44938400-44952800	Strong transcription	Osteobl	bone
46	chr15:44938400-44953400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr15:44938600-44945400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr15:44938600-44946400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
49	chr15:44938600-44949600	Strong transcription	Placenta Amnion	Placenta Amnion
50	chr15:44938600-44952000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links