Variant report

Variant	rs655419
Chromosome Location	chr5:41511242-41511243
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF263	chr5:41510140-41511527	HEK293-T-REx	kidney:	n/a	chr5:41510895-41510904
2	MXI1	chr5:41505509-41512066	SK-N-SH	brain:	n/a	chr5:41510474-41510483

Variant related genes	Relation type
PLCXD3	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10057833	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10060029	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10063143	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10063880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10075789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10941543	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11951028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1598738	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827692	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2219354	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2446961	0.88[CEU][hapmap]
rs2644046	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2876922	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs318018	1.00[ASN][1000 genomes]
rs3863150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs566188	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs602985	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs603855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs624733	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs628092	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6451576	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs661518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs662066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs664232	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs675451	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs676328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs685542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6871147	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6877159	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs688551	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6895255	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700933	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7714031	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822138	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822139	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822141	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822146	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs861980	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9292809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][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	nsv969281	chr5:41509672-41514269	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41505600-41511400	Active TSS	Right Atrium	heart
2	chr5:41505800-41511400	Active TSS	Right Ventricle	heart
3	chr5:41508200-41511400	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr5:41510200-41511400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
5	chr5:41510200-41511400	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
6	chr5:41510200-41511400	Active TSS	A549	lung
7	chr5:41510600-41511400	Bivalent/Poised TSS	Brain Germinal Matrix	brain
8	chr5:41510600-41511400	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr5:41510600-41511400	Active TSS	Fetal Brain Female	brain
10	chr5:41510800-41511400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:41510800-41511400	Enhancers	Placenta Amnion	Placenta Amnion
12	chr5:41510800-41511400	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
13	chr5:41510800-41511600	Enhancers	Esophagus	oesophagus
14	chr5:41510800-41511600	Enhancers	Gastric	stomach
15	chr5:41511000-41511400	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
16	chr5:41511000-41511400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
17	chr5:41511000-41511400	Flanking Active TSS	Ovary	ovary
18	chr5:41511000-41511400	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
19	chr5:41511000-41511600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:41511000-41511600	Flanking Active TSS	Fetal Heart	heart
21	chr5:41511200-41511400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr5:41511200-41511400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
23	chr5:41511200-41511400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
24	chr5:41511200-41511400	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr5:41511200-41511400	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:41511200-41511400	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
27	chr5:41511200-41511400	Active TSS	Rectal Smooth Muscle	rectum
28	chr5:41511200-41511600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
29	chr5:41511200-41511600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
30	chr5:41511200-41511600	Bivalent Enhancer	Brain Hippocampus Middle	brain
31	chr5:41511200-41511600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr5:41511200-41511600	Enhancers	Fetal Brain Male	brain
33	chr5:41511200-41511600	Bivalent Enhancer	Fetal Intestine Small	intestine
34	chr5:41511200-41511800	Enhancers	Left Ventricle	heart

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