Variant report

Variant	rs12509922
Chromosome Location	chr4:28756026-28756027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10025330	0.83[CEU][hapmap];0.81[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs10025997	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1038902	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12508012	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12511940	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1389179	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1389180	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493138	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1493139	0.89[ASN][1000 genomes]
rs1493152	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56328800	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757926	chr4:28543958-28839437	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	esv2759239	chr4:28543958-28839437	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
3	esv1848641	chr4:28588964-28760835	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv2757050	chr4:28632207-28769118	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv878783	chr4:28680520-28843029	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
6	nsv878784	chr4:28680520-29069894	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1002062	chr4:28715676-28779033	Weak transcription Flanking Active TSS Enhancers Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv593894	chr4:28738088-28872833	Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1004754	chr4:28738893-28875390	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
10	nsv998478	chr4:28739164-28865373	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28755000-28756200	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr4:28755000-28756400	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr4:28755000-28757200	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr4:28755000-28757600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:28755200-28756400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:28755200-28756400	Enhancers	Fetal Brain Female	brain
7	chr4:28755200-28756800	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr4:28755200-28757600	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr4:28755600-28756400	Enhancers	H1 Cell Line	embryonic stem cell
10	chr4:28755600-28756400	Enhancers	Fetal Brain Male	brain
11	chr4:28755800-28756400	Enhancers	H9 Cell Line	embryonic stem cell
12	chr4:28755800-28756600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:28755800-28757200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:28755800-28757200	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr4:28756000-28756400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:28756000-28756400	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr4:28756000-28757200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links