Variant report

Variant	rs16888829
Chromosome Location	chr8:39975003-39975004
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10958600	0.82[CHB][hapmap]
rs11776646	0.96[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs13257096	0.82[CEU][hapmap]
rs1471559	0.82[CHB][hapmap]
rs28626858	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4367521	0.86[MEX][hapmap]
rs4370521	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4737044	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60884501	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7008253	0.90[ASN][1000 genomes]
rs7829090	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv534582	chr8:39884590-40653224	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16888829	STAR	cis	parietal	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39959600-39976400	Weak transcription	Pancreas	Pancrea
2	chr8:39967400-39976400	Weak transcription	Stomach Mucosa	stomach
3	chr8:39970800-39976400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr8:39971400-39976400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr8:39972200-39975600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr8:39972800-39976400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr8:39973000-39976400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr8:39973400-39976400	Weak transcription	Lung	lung
9	chr8:39973600-39975600	Weak transcription	HUVEC	blood vessel
10	chr8:39973600-39976200	Enhancers	A549	lung
11	chr8:39973600-39976400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr8:39973600-39976400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr8:39973600-39976400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr8:39973600-39976400	Weak transcription	Fetal Intestine Large	intestine
15	chr8:39973600-39976400	Weak transcription	Fetal Intestine Small	intestine
16	chr8:39973600-39976600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr8:39973600-39976600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr8:39973600-39982400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr8:39973600-39984000	Weak transcription	Left Ventricle	heart
20	chr8:39973800-39976400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr8:39973800-39976400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr8:39973800-39976400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr8:39973800-39976400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr8:39974000-39976200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr8:39974000-39977800	Weak transcription	Fetal Lung	lung
26	chr8:39974200-39976400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr8:39974200-39981400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr8:39974400-39975600	Weak transcription	Colon Smooth Muscle	Colon
29	chr8:39974400-39976400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr8:39974400-39976400	Weak transcription	Rectal Smooth Muscle	rectum
31	chr8:39974600-39976200	Weak transcription	HepG2	liver

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