Variant report

Variant	rs74088339
Chromosome Location	chr13:53470863-53470864
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs17052613	1.00[AMR][1000 genomes]
rs56217013	1.00[AMR][1000 genomes]
rs56740905	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57598135	1.00[AMR][1000 genomes]
rs58545123	1.00[AMR][1000 genomes]
rs58732737	1.00[AMR][1000 genomes]
rs60472137	1.00[AMR][1000 genomes]
rs61141148	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74086052	1.00[AMR][1000 genomes]
rs74086055	1.00[AMR][1000 genomes]
rs74086507	1.00[AMR][1000 genomes]
rs74086510	1.00[AMR][1000 genomes]
rs74086511	1.00[AMR][1000 genomes]
rs74086514	1.00[AMR][1000 genomes]
rs74086515	1.00[AMR][1000 genomes]
rs74086517	1.00[AMR][1000 genomes]
rs74086519	1.00[AMR][1000 genomes]
rs74086523	1.00[AMR][1000 genomes]
rs74086527	1.00[AMR][1000 genomes]
rs74088311	1.00[AMR][1000 genomes]
rs74088318	1.00[AMR][1000 genomes]
rs74088320	1.00[AMR][1000 genomes]
rs74088322	1.00[AMR][1000 genomes]
rs74088323	1.00[AMR][1000 genomes]
rs74088324	1.00[AMR][1000 genomes]
rs74088325	1.00[AMR][1000 genomes]
rs74088330	1.00[AMR][1000 genomes]
rs74088337	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74088358	1.00[AMR][1000 genomes]
rs74088371	1.00[AMR][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	nsv900090	chr13:53429453-53495715	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53461600-53471200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr13:53463000-53471200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr13:53466400-53471000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:53466800-53471000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr13:53466800-53471200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr13:53466800-53472400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr13:53467000-53471000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr13:53467200-53471000	Weak transcription	Fetal Brain Female	brain
9	chr13:53467400-53471000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr13:53468400-53471000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr13:53469600-53471000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr13:53469600-53472400	Enhancers	Fetal Brain Male	brain
13	chr13:53469800-53471800	Enhancers	Fetal Stomach	stomach
14	chr13:53470000-53471600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr13:53470200-53471800	Enhancers	Brain Germinal Matrix	brain
16	chr13:53470200-53471800	Enhancers	Fetal Muscle Leg	muscle
17	chr13:53470800-53471600	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr13:53470800-53472200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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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

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