Variant report

Variant	rs17580764
Chromosome Location	chr1:226797654-226797655
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:226796572..226799349-chr1:227127668..227129647,2	K562	blood:
2	chr1:226789700..226792954-chr1:226793236..226797673,6	K562	blood:

Variant related genes	Relation type
ENSG00000163050	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12029429	1.00[CEU][hapmap]
rs17520589	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs17520819	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17579954	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs17580122	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55767921	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56290706	1.00[AFR][1000 genomes]
rs58677448	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60520072	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs60706522	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs708755	0.88[EUR][1000 genomes]
rs73098838	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470779	chr1:226778432-226833304	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv873234	chr1:226779449-226859676	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3437833	chr1:226780025-226810577	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv522446	chr1:226785530-226923938	Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:226793000-226797800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr1:226793000-226797800	Weak transcription	Right Ventricle	heart
3	chr1:226793000-226798400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr1:226796000-226797800	Enhancers	Fetal Brain Male	brain
5	chr1:226796200-226798600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:226796400-226797800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr1:226796400-226798000	Enhancers	Adipose Nuclei	Adipose
8	chr1:226796400-226798600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:226796400-226798600	Enhancers	Placenta	Placenta
10	chr1:226796600-226798200	Enhancers	Fetal Muscle Leg	muscle
11	chr1:226796600-226798400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr1:226796800-226798200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
13	chr1:226796800-226798600	Enhancers	HSMMtube	muscle
14	chr1:226796800-226798800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr1:226796800-226798800	Enhancers	NHDF-Ad	bronchial
16	chr1:226797000-226798200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr1:226797000-226798400	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:226797000-226798400	Enhancers	Fetal Thymus	thymus
19	chr1:226797000-226798600	Enhancers	Stomach Smooth Muscle	stomach
20	chr1:226797600-226797800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr1:226797600-226798000	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr1:226797600-226798000	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:226797600-226798000	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
24	chr1:226797600-226798800	Enhancers	Fetal Heart	heart
25	chr1:226797600-226798800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
26	chr1:226797600-226798800	Enhancers	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links