Variant report

Variant	rs4442567
Chromosome Location	chr11:56988451-56988452
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:56982364..56984084-chr11:56987113..56988700,2	K562	blood:
2	chr11:56982363..56983864-chr11:56987113..56989576,2	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10792077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11603194	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11603531	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11820215	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1893937	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2077190	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs480586	0.81[ASN][1000 genomes]
rs486524	0.85[ASN][1000 genomes]
rs489379	0.81[ASN][1000 genomes]
rs4939113	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4939118	0.86[ASN][1000 genomes]
rs514354	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs542107	0.81[ASN][1000 genomes]
rs567766	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs609763	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs622932	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs646146	0.80[ASN][1000 genomes]
rs648409	0.80[ASN][1000 genomes]
rs652068	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs664437	0.95[CHB][hapmap];0.92[JPT][hapmap];0.90[MEX][hapmap];0.81[ASN][1000 genomes]
rs948851	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes];0.80[ASN][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	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv482317	chr11:56857026-57028631	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4442567	OR4C15	cis	parietal	SCAN
rs4442567	OR10AG1	cis	parietal	SCAN
rs4442567	GTDC1	trans	parietal	SCAN
rs4442567	LRRC55	cis	parietal	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:56982000-56989200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:56982400-56988800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:56982600-56989600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr11:56982600-56991000	Weak transcription	Osteobl	bone
5	chr11:56982600-56991800	Weak transcription	NHDF-Ad	bronchial
6	chr11:56983000-56989600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:56984800-56988600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:56984800-56991000	Weak transcription	HSMMtube	muscle
9	chr11:56984800-56991200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr11:56985000-56989400	Weak transcription	HUVEC	blood vessel
11	chr11:56986000-56988600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr11:56986800-56989200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr11:56987000-56988800	Enhancers	Placenta	Placenta
14	chr11:56987000-56991400	Weak transcription	Brain Anterior Caudate	brain
15	chr11:56987200-56989200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:56987200-56989200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr11:56987200-56989600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr11:56987200-56991200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:56987200-56991400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr11:56987200-56995200	Weak transcription	Left Ventricle	heart
21	chr11:56987400-56989600	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr11:56987600-56988600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr11:56987600-56988800	Weak transcription	Adipose Nuclei	Adipose
24	chr11:56987600-56990200	Weak transcription	Fetal Muscle Leg	muscle
25	chr11:56987600-57000800	Weak transcription	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links