Variant report

Variant	rs17007489
Chromosome Location	chr4:142573486-142573487
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs17007480	1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs17007506	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs17007530	1.00[YRI][hapmap]
rs17007535	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs17007539	1.00[YRI][hapmap]
rs17007541	1.00[YRI][hapmap]
rs60699545	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880173	chr4:142355535-142666106	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3401979	chr4:142434442-142803321	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1018949	chr4:142451823-142732365	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1030822	chr4:142487721-142706053	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1027004	chr4:142487721-143007320	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142559800-142574000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:142560000-142575200	Weak transcription	Right Atrium	heart
3	chr4:142564000-142575200	Weak transcription	Psoas Muscle	Psoas
4	chr4:142565400-142580600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:142567800-142586400	Weak transcription	HSMM	muscle
6	chr4:142568800-142581000	Weak transcription	A549	lung
7	chr4:142569200-142575200	Weak transcription	Aorta	Aorta
8	chr4:142569200-142577000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr4:142569200-142582800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:142569400-142573800	Weak transcription	NHLF	lung
11	chr4:142570200-142579200	Weak transcription	Spleen	Spleen
12	chr4:142570400-142586400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr4:142570800-142578800	Weak transcription	GM12878-XiMat	blood
14	chr4:142572800-142574000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:142573000-142573800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr4:142573000-142574200	Enhancers	Fetal Heart	heart
17	chr4:142573000-142574200	Enhancers	Fetal Lung	lung
18	chr4:142573000-142574600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr4:142573000-142575200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr4:142573000-142575800	Enhancers	Fetal Stomach	stomach
21	chr4:142573200-142574000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr4:142573200-142574200	Enhancers	Muscle Satellite Cultured Cells	--
23	chr4:142573200-142574200	Enhancers	Colon Smooth Muscle	Colon
24	chr4:142573200-142574200	Enhancers	NH-A	brain
25	chr4:142573400-142573800	Enhancers	Adipose Nuclei	Adipose
26	chr4:142573400-142573800	Enhancers	Brain Anterior Caudate	brain
27	chr4:142573400-142573800	Enhancers	HSMMtube	muscle
28	chr4:142573400-142574000	Enhancers	Osteobl	bone
29	chr4:142573400-142574200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr4:142573400-142574200	Enhancers	Brain Substantia Nigra	brain
31	chr4:142573400-142574200	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr4:142573400-142574200	Enhancers	Small Intestine	intestine
33	chr4:142573400-142574200	Enhancers	NHDF-Ad	bronchial
34	chr4:142573400-142574400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr4:142573400-142575600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr4:142573400-142575800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links