Variant report

Variant	rs11597420
Chromosome Location	chr10:98151328-98151329
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11188740	0.88[MEX][hapmap]
rs11594430	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12252784	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs17111762	0.88[MEX][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs2093557	0.88[MEX][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs2181324	1.00[CHB][hapmap];0.83[AFR][1000 genomes];0.85[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1047657	chr10:98123234-98183487	Weak transcription Active TSS Genic enhancers Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11597420	SLC25A28	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98145400-98156600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:98149000-98151400	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr10:98149000-98151800	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr10:98149000-98153400	Enhancers	Fetal Brain Male	brain
5	chr10:98149000-98153800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:98149200-98151400	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr10:98149200-98152600	Enhancers	Fetal Brain Female	brain
8	chr10:98150000-98156000	Weak transcription	Right Ventricle	heart
9	chr10:98150600-98153200	Weak transcription	Esophagus	oesophagus
10	chr10:98150600-98155600	Weak transcription	Brain Angular Gyrus	brain
11	chr10:98150800-98151800	Enhancers	Colon Smooth Muscle	Colon
12	chr10:98150800-98155600	Weak transcription	Fetal Heart	heart
13	chr10:98151000-98155600	Weak transcription	Brain Anterior Caudate	brain
14	chr10:98151000-98155600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr10:98151000-98155600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr10:98151200-98152400	Weak transcription	Right Atrium	heart
17	chr10:98151200-98156000	Weak transcription	Left Ventricle	heart
18	chr10:98151200-98156000	Weak transcription	Pancreas	Pancrea

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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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