Variant report

Variant	rs17252034
Chromosome Location	chr13:51755107-51755108
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11617882	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11618155	0.93[ASN][1000 genomes]
rs11618500	0.94[ASN][1000 genomes]
rs1557005	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1571108	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17252027	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17837198	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17837200	0.82[EUR][1000 genomes]
rs2031656	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57423635	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60633523	0.94[ASN][1000 genomes]
rs73194165	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73194171	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73194172	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73194176	0.93[ASN][1000 genomes]
rs73194177	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73194179	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv523778	chr13:51755107-51768501	Weak transcription Strong transcription Enhancers Genic enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17252034	IGF1	trans	lymphoblastoid	seeQTL
rs17252034	PCDH8	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51750000-51755200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:51750000-51763000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr13:51750200-51755200	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr13:51750200-51767000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr13:51752600-51755200	Genic enhancers	HUES48 Cell Line	embryonic stem cell
6	chr13:51753000-51757600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr13:51753200-51755200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr13:51753200-51757800	Weak transcription	Right Atrium	heart
9	chr13:51754000-51766000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr13:51754600-51770000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr13:51754800-51755200	Enhancers	Fetal Lung	lung
12	chr13:51754800-51756200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr13:51755000-51757200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr13:51755000-51757400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr13:51755000-51757400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr13:51755000-51765600	Weak transcription	HUES64 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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