Variant report

Variant	rs10077239
Chromosome Location	chr5:114960881-114960882
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:114880215..114881730-chr5:114959993..114961960,2	K562	blood:
2	chr5:114936247..114938177-chr5:114959534..114962655,3	K562	blood:
3	chr5:114934797..114939548-chr5:114953575..114961976,8	K562	blood:
4	chr5:114960865..114962954-chr5:115170753..115172835,2	MCF-7	breast:
5	chr5:114960793..114963745-chr5:114966203..114968929,3	MCF-7	breast:
6	chr5:114823713..114825523-chr5:114959295..114961713,2	K562	blood:
7	chr5:114959789..114964126-chr5:115174280..115179155,11	MCF-7	breast:
8	chr5:114959972..114961559-chr5:114968559..114970452,2	K562	blood:
9	chr5:114630095..114632050-chr5:114960167..114962829,2	MCF-7	breast:
10	chr5:114960090..114964183-chr5:115419193..115421485,4	MCF-7	breast:
11	chr5:114959625..114963439-chr5:115175786..115178902,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000145782	Chromatin interaction
ENSG00000164221	Chromatin interaction
ENSG00000271918	Chromatin interaction
ENSG00000145780	Chromatin interaction
ENSG00000243414	Chromatin interaction
ENSG00000134970	Chromatin interaction
ENSG00000177879	Chromatin interaction
ENSG00000145781	Chromatin interaction
ENSG00000249249	Chromatin interaction
ENSG00000249944	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10043094	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10051170	0.93[ASN][1000 genomes]
rs10055339	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10055514	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10069695	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10073505	0.96[EUR][1000 genomes]
rs10075869	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10079000	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13153908	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2052834	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2303746	0.83[AMR][1000 genomes]
rs256963	0.99[ASN][1000 genomes]
rs256965	0.80[EUR][1000 genomes]
rs256989	0.83[EUR][1000 genomes]
rs256995	0.83[EUR][1000 genomes]
rs56104517	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6594895	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs746566	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9326970	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916273	chr5:114656592-115089901	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv868915	chr5:114723371-115252527	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:114958000-114961200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr5:114958800-114961000	Flanking Active TSS	Liver	Liver
3	chr5:114958800-114962400	Active TSS	Aorta	Aorta
4	chr5:114959000-114961000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:114959200-114961000	Flanking Active TSS	Duodenum Mucosa	Duodenum
6	chr5:114959200-114962400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr5:114959400-114961000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:114959400-114962400	Active TSS	Fetal Intestine Large	intestine
9	chr5:114959400-114962400	Active TSS	Left Ventricle	heart
10	chr5:114959600-114961000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
11	chr5:114959600-114961000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
12	chr5:114959600-114961200	Flanking Active TSS	Adipose Nuclei	Adipose
13	chr5:114959600-114961400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
14	chr5:114959600-114962600	Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr5:114959600-114962800	Active TSS	GM12878-XiMat	blood
16	chr5:114959800-114961000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:114959800-114961000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
18	chr5:114959800-114961000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
19	chr5:114959800-114961000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
20	chr5:114959800-114961200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
21	chr5:114959800-114961600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr5:114959800-114962400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr5:114960000-114961000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
24	chr5:114960000-114961000	Flanking Active TSS	Brain Anterior Caudate	brain
25	chr5:114960000-114961000	Flanking Active TSS	Brain Cingulate Gyrus	brain
26	chr5:114960000-114961000	Flanking Active TSS	Colon Smooth Muscle	Colon
27	chr5:114960000-114961000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
28	chr5:114960000-114961000	Flanking Active TSS	Fetal Brain Male	brain
29	chr5:114960000-114961000	Flanking Active TSS	Fetal Lung	lung
30	chr5:114960000-114961000	Flanking Active TSS	Rectal Smooth Muscle	rectum
31	chr5:114960000-114961000	Flanking Active TSS	Thymus	Thymus
32	chr5:114960000-114961200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
33	chr5:114960000-114961200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
34	chr5:114960000-114961400	Flanking Active TSS	Primary T cells from cord blood	blood
35	chr5:114960000-114961400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
36	chr5:114960000-114961600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
37	chr5:114960000-114961600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr5:114960000-114961600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr5:114960000-114962400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr5:114960000-114962400	Active TSS	Lung	lung
41	chr5:114960000-114962400	Active TSS	Pancreas	Pancrea
42	chr5:114960000-114962400	Active TSS	NHDF-Ad	bronchial
43	chr5:114960000-114962600	Active TSS	H9 Cell Line	embryonic stem cell
44	chr5:114960000-114962600	Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr5:114960000-114962600	Active TSS	Stomach Mucosa	stomach
46	chr5:114960200-114961000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr5:114960200-114961000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
48	chr5:114960200-114961000	Flanking Active TSS	Brain Substantia Nigra	brain
49	chr5:114960200-114961000	Flanking Active TSS	Fetal Stomach	stomach
50	chr5:114960200-114961000	Flanking Active TSS	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links