Variant report

Variant	rs10131446
Chromosome Location	chr14:69940040-69940041
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10132626	0.82[AMR][1000 genomes]
rs10137668	0.83[YRI][hapmap]
rs17764155	0.83[YRI][hapmap];0.82[AMR][1000 genomes]
rs17836240	0.80[CEU][hapmap];0.89[AMR][1000 genomes]
rs2015547	0.81[AMR][1000 genomes]
rs28531897	0.87[AMR][1000 genomes]
rs6573886	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7156420	0.92[JPT][hapmap]
rs7161463	0.84[AMR][1000 genomes]
rs8003906	0.92[JPT][hapmap]
rs8004020	0.93[JPT][hapmap]
rs8013985	0.92[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3396933	chr14:69906914-70001258	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1048882	chr14:69920881-69976694	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1052107	chr14:69922552-69969297	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1039230	chr14:69922552-69972002	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1039192	chr14:69922552-69976694	Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv456335	chr14:69928307-69971598	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv564967	chr14:69928307-69971598	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10131446	SLC39A9	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69923600-69950400	Weak transcription	Gastric	stomach
2	chr14:69925400-69942000	Weak transcription	Spleen	Spleen
3	chr14:69928000-69941000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr14:69928600-69950600	Weak transcription	Aorta	Aorta
5	chr14:69928800-69940200	Weak transcription	Thymus	Thymus
6	chr14:69928800-69940400	Weak transcription	Adipose Nuclei	Adipose
7	chr14:69928800-69941000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr14:69929000-69940200	Weak transcription	HSMMtube	muscle
9	chr14:69929000-69940400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr14:69929000-69941400	Weak transcription	Ovary	ovary
11	chr14:69929400-69940200	Weak transcription	Placenta	Placenta
12	chr14:69936200-69940200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr14:69940000-69940200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr14:69940000-69940800	Enhancers	Hela-S3	cervix
15	chr14:69940000-69941000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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