Variant report

Variant	rs12876856
Chromosome Location	chr13:53534896-53534897
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11617841	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12867633	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34858262	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34953476	1.00[ASN][1000 genomes]
rs35082723	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68164717	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7319859	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7320575	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7321464	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7321816	0.92[EUR][1000 genomes]
rs7326351	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7327967	0.80[EUR][1000 genomes]
rs9536321	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536322	0.96[EUR][1000 genomes]
rs9536327	0.81[EUR][1000 genomes]
rs9591484	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9596733	0.82[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	nsv530719	chr13:53173014-53675953	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	esv3440613	chr13:53307609-53671072	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv832613	chr13:53524319-53687188	Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53529800-53535600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:53530200-53535000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr13:53530400-53535600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr13:53531200-53535000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr13:53531200-53535200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr13:53531200-53535200	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr13:53531200-53535600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr13:53531600-53535000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr13:53532800-53541000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr13:53533800-53540800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:53534200-53535000	Enhancers	H9 Cell Line	embryonic stem cell
12	chr13:53534400-53536200	Enhancers	Dnd41	blood
13	chr13:53534400-53536600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr13:53534600-53536200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr13:53534600-53538000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr13:53534800-53539000	Enhancers	HUES64 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