Variant report

Variant	rs4880691
Chromosome Location	chr10:4892905-4892906
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:4865557..4869749-chr10:4889417..4893452,5	K562	blood:
2	chr10:4869791..4871610-chr10:4890458..4893097,2	K562	blood:
3	chr10:4891671..4893997-chr10:4908116..4911487,5	K562	blood:
4	chr10:4887846..4890181-chr10:4890997..4893869,2	MCF-7	breast:
5	chr10:4889478..4893997-chr10:4907910..4911141,5	K562	blood:
6	chr10:4892321..4893891-chr10:5065026..5067152,2	MCF-7	breast:
7	chr10:4889582..4893055-chr10:5488577..5492028,3	K562	blood:
8	chr10:4868225..4872491-chr10:4887658..4893097,7	K562	blood:
9	chr10:4881735..4884422-chr10:4890525..4893210,2	K562	blood:
10	chr10:4889346..4893055-chr10:5487931..5492462,5	K562	blood:

No data

Variant related genes	Relation type
ENSG00000173848	Chromatin interaction
ENSG00000165568	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10751986	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10751987	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10795202	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10904351	1.00[ASN][1000 genomes]
rs11252763	0.90[ASN][1000 genomes]
rs11252775	0.98[ASN][1000 genomes]
rs2123350	0.89[ASN][1000 genomes]
rs2123353	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2167698	0.91[ASN][1000 genomes]
rs2167701	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167702	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2278870	1.00[ASN][1000 genomes]
rs2961559	0.84[ASN][1000 genomes]
rs4363494	1.00[ASN][1000 genomes]
rs4880690	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4881353	0.99[ASN][1000 genomes]
rs4881354	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4881355	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071039	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7921112	0.99[ASN][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	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4878600-4894600	Weak transcription	Ovary	ovary
2	chr10:4880200-4894400	Weak transcription	Brain Germinal Matrix	brain
3	chr10:4886000-4909800	Weak transcription	Left Ventricle	heart
4	chr10:4888000-4896000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr10:4888400-4896800	Weak transcription	Spleen	Spleen
6	chr10:4888600-4895000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:4889400-4894000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:4889600-4895800	Enhancers	Stomach Mucosa	stomach
9	chr10:4890600-4894000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:4891200-4895600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr10:4891200-4899600	Weak transcription	Esophagus	oesophagus
12	chr10:4891400-4894000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr10:4891600-4893000	Enhancers	Colon Smooth Muscle	Colon
14	chr10:4891600-4896200	Enhancers	Liver	Liver
15	chr10:4891800-4895000	Enhancers	Fetal Muscle Leg	muscle
16	chr10:4891800-4895200	Enhancers	Pancreas	Pancrea
17	chr10:4892000-4893000	Enhancers	HepG2	liver
18	chr10:4892000-4893200	Genic enhancers	K562	blood
19	chr10:4892000-4893400	Weak transcription	Gastric	stomach
20	chr10:4892000-4893400	Enhancers	A549	lung
21	chr10:4892000-4894400	Enhancers	Right Atrium	heart
22	chr10:4892000-4895000	Weak transcription	Rectal Smooth Muscle	rectum
23	chr10:4892200-4893000	Flanking Active TSS	Osteobl	bone
24	chr10:4892200-4917800	Weak transcription	Primary T cells from cord blood	blood
25	chr10:4892400-4893000	Enhancers	Stomach Smooth Muscle	stomach
26	chr10:4892400-4893000	Flanking Active TSS	HSMM	muscle
27	chr10:4892400-4894400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr10:4892400-4895800	Enhancers	Adipose Nuclei	Adipose
29	chr10:4892400-4896800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:4892600-4893200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:4892600-4893400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr10:4892600-4893400	Enhancers	Muscle Satellite Cultured Cells	--
33	chr10:4892600-4893800	Weak transcription	Fetal Lung	lung
34	chr10:4892600-4894000	Weak transcription	Fetal Brain Male	brain
35	chr10:4892600-4894000	Weak transcription	Fetal Heart	heart
36	chr10:4892600-4894000	Weak transcription	Hela-S3	cervix
37	chr10:4892600-4894200	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr10:4892600-4895000	Weak transcription	Fetal Kidney	kidney
39	chr10:4892600-4895600	Weak transcription	Aorta	Aorta
40	chr10:4892600-4896800	Weak transcription	Duodenum Mucosa	Duodenum
41	chr10:4892600-4899400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr10:4892600-4899600	Weak transcription	Fetal Stomach	stomach
43	chr10:4892800-4893000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr10:4892800-4893000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr10:4892800-4893000	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr10:4892800-4893000	Enhancers	HSMMtube	muscle
47	chr10:4892800-4894000	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links