Variant report

Variant	rs28391655
Chromosome Location	chr5:179161652-179161653
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:179157063..179161797-chr5:179244181..179249709,13	MCF-7	breast:
2	chr5:179123632..179128657-chr5:179156913..179163491,14	MCF-7	breast:
3	chr5:179161523..179163573-chr5:179243732..179245347,2	MCF-7	breast:
4	chr5:179122873..179128898-chr5:179155888..179164921,20	K562	blood:
5	chr5:179124035..179127505-chr5:179157238..179162405,12	MCF-7	breast:
6	chr5:179157089..179164271-chr5:179242384..179250347,16	K562	blood:
7	chr5:179159426..179161743-chr5:179249637..179251731,2	MCF-7	breast:
8	chr5:179159613..179162067-chr5:179246269..179249324,3	MCF-7	breast:
9	chr5:179160317..179162813-chr5:179497518..179499972,2	K562	blood:
10	chr5:179161374..179164232-chr5:179220024..179222829,2	MCF-7	breast:
11	chr5:179143486..179153989-chr5:179156108..179164461,19	MCF-7	breast:
12	chr5:179157523..179162988-chr5:179219694..179224698,13	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000127022	Chromatin interaction
ENSG00000161011	Chromatin interaction
ENSG00000113269	Chromatin interaction
ENSG00000213316	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs28656195	0.89[AFR][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	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
2	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
3	nsv830560	chr5:179039212-179175758	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	132 gene(s)	inside rSNPs	diseases
4	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases
5	esv3413500	chr5:179159171-179161719	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179159000-179162000	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr5:179159000-179162000	Active TSS	Colonic Mucosa	Colon
3	chr5:179159200-179161800	Active TSS	iPS-18 Cell Line	embryonic stem cell
4	chr5:179159200-179162000	Active TSS	H9 Cell Line	embryonic stem cell
5	chr5:179159200-179162000	Active TSS	NHLF	lung
6	chr5:179159400-179161800	Active TSS	NH-A	brain
7	chr5:179159600-179162000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr5:179159800-179161800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:179160400-179161800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr5:179160400-179162000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr5:179160600-179161800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
12	chr5:179160600-179161800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
13	chr5:179160600-179162000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
14	chr5:179160600-179162000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
15	chr5:179160600-179162000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
16	chr5:179160600-179162000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr5:179160600-179162000	Flanking Active TSS	Brain Anterior Caudate	brain
18	chr5:179160800-179161800	Flanking Active TSS	Primary T cells from cord blood	blood
19	chr5:179160800-179161800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
20	chr5:179160800-179161800	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
21	chr5:179160800-179161800	Flanking Active TSS	Rectal Smooth Muscle	rectum
22	chr5:179160800-179161800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
23	chr5:179160800-179162000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr5:179160800-179162000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr5:179160800-179162000	Flanking Active TSS	Colon Smooth Muscle	Colon
26	chr5:179160800-179162000	Flanking Active TSS	Stomach Smooth Muscle	stomach
27	chr5:179160800-179162000	Flanking Active TSS	Dnd41	blood
28	chr5:179160800-179162400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
29	chr5:179161000-179161800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
30	chr5:179161000-179161800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
31	chr5:179161000-179161800	Flanking Active TSS	Brain Cingulate Gyrus	brain
32	chr5:179161000-179161800	Flanking Active TSS	Duodenum Mucosa	Duodenum
33	chr5:179161000-179161800	Flanking Active TSS	Fetal Lung	lung
34	chr5:179161000-179161800	Flanking Active TSS	Osteobl	bone
35	chr5:179161000-179162000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr5:179161000-179162000	Enhancers	Placenta	Placenta
37	chr5:179161000-179162400	Flanking Active TSS	Fetal Brain Female	brain
38	chr5:179161000-179163200	Enhancers	Primary B cells from peripheral blood	blood
39	chr5:179161000-179163600	Enhancers	Small Intestine	intestine
40	chr5:179161000-179164600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr5:179161000-179174000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr5:179161000-179174000	Weak transcription	Gastric	stomach
43	chr5:179161000-179174200	Weak transcription	Esophagus	oesophagus
44	chr5:179161000-179181200	Weak transcription	Aorta	Aorta
45	chr5:179161000-179181600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr5:179161000-179181800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr5:179161200-179161800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr5:179161200-179161800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr5:179161200-179161800	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
50	chr5:179161200-179161800	Enhancers	Brain Substantia Nigra	brain

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