Variant report

Variant	rs1556523
Chromosome Location	chr9:9412293-9412294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10122096	0.90[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10123763	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs10124125	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs10739187	0.86[JPT][hapmap]
rs10739189	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs10759060	0.82[JPT][hapmap]
rs10759062	0.90[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs10816127	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10977739	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1332204	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1332206	0.92[CEU][hapmap];0.87[CHB][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1332207	1.00[CEU][hapmap]
rs1333110	0.82[JPT][hapmap]
rs1412727	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1475680	0.90[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs1475690	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1556463	0.93[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1556524	0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs1556525	0.89[ASN][1000 genomes]
rs1556526	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1888890	0.83[JPT][hapmap]
rs1889102	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1889104	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2151323	0.82[JPT][hapmap]
rs2184079	0.82[JPT][hapmap]
rs2382005	0.86[JPT][hapmap]
rs3949639	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4271025	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4279660	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4358853	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4403465	0.87[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs4537356	0.92[CEU][hapmap]
rs4740981	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742595	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742596	0.86[CEU][hapmap];0.91[JPT][hapmap]
rs7039878	0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs7040937	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7043400	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7045413	0.85[ASN][1000 genomes]
rs7852595	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7855884	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs914804	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs914805	0.88[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs928475	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498066	chr9:8961722-9486652	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv892252	chr9:9164473-9476425	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1025791	chr9:9294304-9626331	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv892258	chr9:9304839-9455711	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv892260	chr9:9350608-9474970	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1016302	chr9:9355676-9549587	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv539982	chr9:9355676-9549587	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv892262	chr9:9382331-9445270	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region	2 gene(s)	inside rSNPs	diseases
9	nsv1015203	chr9:9385317-9435620	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
10	nsv1017939	chr9:9386437-9415009	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
11	nsv1033399	chr9:9387684-9417108	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
12	nsv892263	chr9:9404896-9436044	ZNF genes & repeats Enhancers Weak transcription Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
13	nsv613308	chr9:9409606-9750139	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9411400-9412800	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr9:9411800-9412600	Enhancers	Fetal Brain Female	brain
3	chr9:9411800-9413800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:9412000-9412400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:9412000-9412400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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