Variant report

Variant	rs12001671
Chromosome Location	chr9:8557948-8557949
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10511502	1.00[JPT][hapmap]
rs10511503	0.85[JPT][hapmap]
rs10977200	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977201	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977202	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977203	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977266	1.00[CEU][hapmap]
rs12347603	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16928132	0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs16928137	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16928138	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4625085	1.00[CEU][hapmap]
rs56869162	1.00[ASN][1000 genomes]
rs57803188	0.97[ASN][1000 genomes]
rs59259113	1.00[ASN][1000 genomes]
rs7026937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7028030	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7028141	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7030442	0.90[ASN][1000 genomes]
rs7032177	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038093	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7846893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7870438	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv892228	chr9:8482778-8703733	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv831504	chr9:8496277-8665773	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1026208	chr9:8534915-8595338	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8534600-8564000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:8553000-8561400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:8553600-8571000	Weak transcription	Brain Anterior Caudate	brain
4	chr9:8553800-8559400	Weak transcription	Brain Angular Gyrus	brain
5	chr9:8556000-8560600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr9:8556000-8561200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:8556200-8558400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:8556200-8559400	Weak transcription	Brain Hippocampus Middle	brain
9	chr9:8556200-8559600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:8556200-8560800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:8556200-8571200	Weak transcription	Ovary	ovary
12	chr9:8556400-8568200	Weak transcription	Brain Substantia Nigra	brain
13	chr9:8556600-8558200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr9:8556600-8570600	Weak transcription	Fetal Lung	lung
15	chr9:8556800-8558600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr9:8557000-8558000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:8557000-8558400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:8557200-8561000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:8557200-8561400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:8557400-8575200	Weak transcription	Fetal Kidney	kidney
21	chr9:8557800-8558600	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links