Variant report

Variant	rs1562365
Chromosome Location	chr11:92850721-92850722
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10501802	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10830983	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10830984	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1446909	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1508610	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1562366	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7130429	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv555903	chr11:92640787-92877533	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv555904	chr11:92640787-92881933	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv526546	chr11:92742186-92851178	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1039134	chr11:92790000-93219942	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv525304	chr11:92829904-92877533	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:92847600-92850800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr11:92848400-92851600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:92849200-92851200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr11:92849400-92851000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr11:92849600-92851200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr11:92849600-92851400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
7	chr11:92849800-92851000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:92849800-92851000	Enhancers	Stomach Mucosa	stomach
9	chr11:92849800-92851200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr11:92849800-92851400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:92849800-92851600	Enhancers	H1 Cell Line	embryonic stem cell
12	chr11:92849800-92852000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr11:92850000-92850800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
14	chr11:92850000-92851200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
15	chr11:92850000-92851400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr11:92850200-92850800	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr11:92850400-92850800	Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr11:92850400-92851000	Enhancers	Fetal Lung	lung
19	chr11:92850400-92851400	Enhancers	H9 Cell Line	embryonic stem cell
20	chr11:92850600-92850800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
21	chr11:92850600-92851000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr11:92850600-92851200	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
23	chr11:92850600-92851800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links