Variant report

Variant	rs2417655
Chromosome Location	chr9:108643745-108643746
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12335482	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2417654	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2860257	0.96[ASN][1000 genomes]
rs2997728	0.98[ASN][1000 genomes]
rs2997729	0.98[ASN][1000 genomes]
rs3010959	0.98[ASN][1000 genomes]
rs4612407	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4742968	0.81[EUR][1000 genomes]
rs6477480	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1041073	chr9:108535813-108731343	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1036849	chr9:108582944-108651205	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1052684	chr9:108582944-108730280	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv615140	chr9:108592589-108725567	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv831679	chr9:108603112-108785347	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108640800-108650000	Weak transcription	Fetal Heart	heart
2	chr9:108641000-108649800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr9:108641800-108645400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:108642000-108645400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr9:108642200-108643800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:108642200-108645200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:108642600-108643800	Weak transcription	K562	blood
8	chr9:108642600-108648000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:108642800-108643800	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr9:108642800-108644000	Enhancers	Brain Substantia Nigra	brain
11	chr9:108643000-108643800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:108643000-108643800	Enhancers	Brain Anterior Caudate	brain
13	chr9:108643000-108643800	Enhancers	Brain Cingulate Gyrus	brain
14	chr9:108643000-108643800	Enhancers	Fetal Brain Female	brain
15	chr9:108643000-108644200	Enhancers	Brain Hippocampus Middle	brain
16	chr9:108643000-108644200	Enhancers	Fetal Brain Male	brain
17	chr9:108643400-108643800	Enhancers	Brain Angular Gyrus	brain

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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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