Variant report

Variant	rs2400444
Chromosome Location	chr3:134883090-134883091
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1159403	1.00[ASW][hapmap];1.00[MKK][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16842648	0.96[MKK][hapmap]
rs4894288	1.00[AMR][1000 genomes]
rs905049	1.00[AMR][1000 genomes]
rs9873553	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	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv877516	chr3:134689420-134918522	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv829731	chr3:134711713-134885064	Strong transcription Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2400444	DPP3	trans	lymphoblastoid	RTeQTL

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134867800-134884800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:134868600-134883800	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:134872800-134885000	Weak transcription	Brain Germinal Matrix	brain
4	chr3:134874800-134901800	Weak transcription	GM12878-XiMat	blood
5	chr3:134878200-134887800	Weak transcription	Spleen	Spleen
6	chr3:134879000-134884000	Weak transcription	Brain Anterior Caudate	brain
7	chr3:134879000-134884800	Weak transcription	Fetal Brain Male	brain
8	chr3:134879000-134887200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:134879000-134889600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:134879200-134888000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr3:134879800-134884200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:134880400-134888400	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:134880600-134885400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:134880600-134888200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:134880800-134884200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:134880800-134888000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:134880800-134889400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr3:134880800-134889600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr3:134880800-134889800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr3:134881200-134891000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr3:134881800-134885600	Weak transcription	Fetal Brain Female	brain
22	chr3:134882200-134883200	Enhancers	Liver	Liver
23	chr3:134882400-134884000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr3:134882400-134885400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:134882800-134884400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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