Variant report

Variant	rs1335360
Chromosome Location	chr9:117979753-117979754
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10739433	0.83[CHB][hapmap];0.82[EUR][1000 genomes]
rs10739434	0.82[EUR][1000 genomes]
rs10759760	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10759762	0.91[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10817722	0.82[EUR][1000 genomes]
rs10817728	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1335340	0.82[EUR][1000 genomes]
rs1335344	0.91[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1335345	0.83[CHB][hapmap];0.85[EUR][1000 genomes]
rs1335351	0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1335354	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1335355	0.86[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1335356	0.86[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1360823	0.86[CHB][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1414148	0.91[CHB][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1414150	0.83[CHB][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1537731	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1537733	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1537734	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1544126	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1591422	0.85[EUR][1000 genomes]
rs1591423	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17834626	0.81[CEU][hapmap]
rs4978625	0.85[EUR][1000 genomes]
rs4978626	0.91[CHB][hapmap];0.86[EUR][1000 genomes]
rs4979511	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6478147	0.83[CHB][hapmap];0.82[EUR][1000 genomes]
rs6478150	0.87[CHB][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6478151	0.83[EUR][1000 genomes]
rs6478152	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6478153	0.91[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7027442	0.85[EUR][1000 genomes]
rs7027882	0.86[CHB][hapmap];0.85[EUR][1000 genomes]
rs7031000	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7043594	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7043679	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7044001	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7044556	0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs7045288	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7045508	0.82[EUR][1000 genomes]
rs7045599	0.81[EUR][1000 genomes]
rs7357796	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs945258	0.86[CHB][hapmap];0.85[EUR][1000 genomes]

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	nsv615250	chr9:117768021-118012841	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916912	chr9:117770039-118014140	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831697	chr9:117860416-118023927	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893769	chr9:117936903-117985886	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv615251	chr9:117975864-118514444	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117974200-117982400	Weak transcription	Brain Germinal Matrix	brain
2	chr9:117975400-117982400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:117976200-117981400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr9:117976600-117980600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr9:117976600-117982600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:117976600-117985400	Weak transcription	Brain Hippocampus Middle	brain
7	chr9:117976600-117987400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:117976800-117980000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr9:117976800-117980000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:117977000-117981400	Weak transcription	Fetal Stomach	stomach
11	chr9:117977000-117982200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:117977000-117982200	Weak transcription	NHEK	skin
13	chr9:117977000-117982800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:117977200-117982000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:117977200-117982200	Weak transcription	Fetal Muscle Leg	muscle
16	chr9:117977200-117982400	Weak transcription	Fetal Brain Male	brain
17	chr9:117979200-117980400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:117979400-117979800	ZNF genes & repeats	Aorta	Aorta
19	chr9:117979600-117980200	Enhancers	Fetal Lung	lung
20	chr9:117979600-117980400	Enhancers	Cortex derived primary cultured neurospheres	brain

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