Variant report

Variant	rs879458
Chromosome Location	chr13:48411255-48411256
allele	A/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:18)

rs_ID	r²[population]
rs11841343	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12875794	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1324798	0.96[ASN][1000 genomes]
rs1324799	0.96[ASN][1000 genomes]
rs1819244	0.81[EUR][1000 genomes]
rs2897436	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3990993	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4609732	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4941611	0.96[ASN][1000 genomes]
rs4941613	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4942702	0.96[ASN][1000 genomes]
rs725771	0.96[ASN][1000 genomes]
rs725772	0.96[ASN][1000 genomes]
rs7338553	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7989911	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9534843	0.95[ASN][1000 genomes]
rs9595798	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9595803	0.94[AMR][1000 genomes];0.85[EUR][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	esv3510679	chr13:48236624-48498185	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3510680	chr13:48236624-48498185	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv561589	chr13:48251736-48420218	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48404400-48412000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:48409600-48413200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:48410000-48411400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr13:48410000-48411600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr13:48410200-48411600	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr13:48410600-48412400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr13:48410600-48413400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr13:48410800-48412400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr13:48411200-48411600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr13:48411200-48413000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr13:48411200-48413000	Enhancers	HUES64 Cell Line	embryonic stem cell

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

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