Variant report

Variant	rs12925405
Chromosome Location	chr16:52150270-52150271
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11648891	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12446598	0.81[AFR][1000 genomes]
rs12446795	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1420270	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3909216	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9923370	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492248	chr16:51681902-52456082	Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	esv34024	chr16:51878565-52316530	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1058257	chr16:52093549-52271815	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:52147200-52151400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr16:52147200-52152600	Weak transcription	Pancreas	Pancrea
3	chr16:52147400-52151600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr16:52147800-52152200	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr16:52148000-52150400	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr16:52148800-52151200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr16:52149000-52151200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr16:52149000-52151400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr16:52149000-52154400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr16:52149200-52150400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr16:52149800-52152000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr16:52150000-52152400	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr16:52150200-52151200	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr16:52150200-52152000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr16:52150200-52152200	Enhancers	iPS-15b 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