Variant report

Variant	rs13171487
Chromosome Location	chr5:52843135-52843136
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]
rs11743522	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12189493	0.83[EUR][1000 genomes]
rs13156337	1.00[ASN][1000 genomes]
rs13167989	1.00[ASN][1000 genomes]
rs13174659	1.00[ASN][1000 genomes]
rs13190232	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	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv880868	chr5:52799618-53002783	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr5:52838800-52843600	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr5:52838800-52843600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:52839200-52843400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:52839200-52843400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr5:52839600-52845600	Weak transcription	K562	blood
6	chr5:52841800-52843400	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr5:52842200-52843400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr5:52842200-52843600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr5:52842200-52843800	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr5:52842600-52849000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr5:52842800-52843400	Enhancers	H9 Cell Line	embryonic stem cell
12	chr5:52842800-52843600	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr5:52842800-52843800	Enhancers	Fetal Intestine Small	intestine
14	chr5:52842800-52845000	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr5:52843000-52843200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr5:52843000-52843600	Weak transcription	Stomach Mucosa	stomach
17	chr5:52843000-52844600	Weak transcription	Fetal Intestine Large	intestine
18	chr5:52843000-52845600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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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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