Variant report

Variant	rs17388474
Chromosome Location	chr10:98129058-98129059
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10736104	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12245169	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1923701	1.00[CHB][hapmap]
rs2861575	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs3814222	0.82[ASN][1000 genomes]
rs41291624	1.00[ASN][1000 genomes]
rs4919005	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs7091125	1.00[CHB][hapmap]
rs9664174	0.82[AMR][1000 genomes];0.98[EUR][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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17388474	KIF11	cis	cerebellum	SCAN
rs17388474	GOT1	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98117000-98134400	Weak transcription	Thymus	Thymus
2	chr10:98118800-98130200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:98126200-98129600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:98126600-98129600	Weak transcription	Placenta	Placenta
5	chr10:98126800-98130400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:98127000-98129600	Weak transcription	Hela-S3	cervix
7	chr10:98127400-98133800	Weak transcription	Fetal Brain Female	brain
8	chr10:98127600-98130000	Weak transcription	Brain Anterior Caudate	brain
9	chr10:98127600-98130400	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr10:98128000-98133400	Weak transcription	Right Ventricle	heart
11	chr10:98128200-98129600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr10:98128200-98134800	Weak transcription	Left Ventricle	heart
13	chr10:98128600-98133800	Weak transcription	Brain Angular Gyrus	brain
14	chr10:98128800-98130000	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr10:98129000-98129800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr10:98129000-98130200	Weak transcription	Brain Substantia Nigra	brain
17	chr10:98129000-98133600	Weak transcription	Brain Hippocampus Middle	brain

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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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