Variant report

Variant	rs41301611
Chromosome Location	chr10:45497924-45497925
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr10:45497855-45497939	K562	blood:	n/a	n/a
2	TBL1XR1	chr10:45497695-45498147	K562	blood:	n/a	n/a
3	E2F4	chr10:45496690-45497965	MCF10A-Er-Src	breast:	n/a	n/a
4	POLR2A	chr10:45496249-45499472	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:45496607..45498157-chr10:45521070..45522987,2	K562	blood:
2	chr10:45495007..45496595-chr10:45497671..45499696,2	MCF-7	breast:
3	chr10:45466696..45473467-chr10:45492241..45499604,15	K562	blood:
4	chr10:45473637..45475496-chr10:45496337..45498041,2	MCF-7	breast:
5	chr10:45495745..45498371-chr10:45630285..45633118,2	K562	blood:

No data

Variant related genes	Relation type
C10orf25	TF binding region
ENSG00000165512	Chromatin interaction
ENSG00000165511	Chromatin interaction
ENSG00000226937	Chromatin interaction
ENSG00000165507	Chromatin interaction
ENSG00000107551	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11239299	1.00[AMR][1000 genomes]
rs11239303	0.94[EUR][1000 genomes]
rs11239305	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11239306	1.00[AMR][1000 genomes]
rs11239307	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11239308	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11239309	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11239311	0.97[EUR][1000 genomes]
rs11239315	0.97[EUR][1000 genomes]
rs11239319	0.97[EUR][1000 genomes]
rs11239323	0.97[EUR][1000 genomes]
rs11239324	0.97[EUR][1000 genomes]
rs11239342	0.97[EUR][1000 genomes]
rs11239343	0.97[EUR][1000 genomes]
rs11239345	0.97[EUR][1000 genomes]
rs11239346	0.97[EUR][1000 genomes]
rs12354652	0.97[EUR][1000 genomes]
rs12358699	0.97[EUR][1000 genomes]
rs12359377	0.97[EUR][1000 genomes]
rs12359697	0.94[EUR][1000 genomes]
rs12359954	1.00[AMR][1000 genomes]
rs17157322	0.94[EUR][1000 genomes]
rs35521977	1.00[AMR][1000 genomes]
rs3740092	0.97[EUR][1000 genomes]
rs3740093	0.97[EUR][1000 genomes]
rs3758399	1.00[AMR][1000 genomes]
rs3758400	1.00[AMR][1000 genomes]
rs41301599	1.00[AMR][1000 genomes]
rs41301601	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs41301609	1.00[EUR][1000 genomes]
rs41306544	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs41306546	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs59381196	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61269477	1.00[AMR][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	nsv831846	chr10:45322236-45556370	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831848	chr10:45490176-45667670	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45495600-45498000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr10:45496200-45498000	Active TSS	Fetal Thymus	thymus
3	chr10:45496200-45498000	Active TSS	GM12878-XiMat	blood
4	chr10:45496800-45498200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
5	chr10:45496800-45498200	Active TSS	Right Atrium	heart
6	chr10:45496800-45498400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr10:45497000-45498000	Flanking Active TSS	Liver	Liver
8	chr10:45497000-45511000	Weak transcription	Gastric	stomach
9	chr10:45497200-45498000	Flanking Active TSS	Dnd41	blood
10	chr10:45497200-45498200	Flanking Active TSS	HUVEC	blood vessel
11	chr10:45497200-45498400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:45497200-45498800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr10:45497200-45498800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr10:45497200-45498800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:45497200-45498800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr10:45497200-45498800	Weak transcription	Ovary	ovary
17	chr10:45497200-45498800	Weak transcription	Pancreas	Pancrea
18	chr10:45497200-45498800	Weak transcription	Spleen	Spleen
19	chr10:45497200-45499200	Weak transcription	Small Intestine	intestine
20	chr10:45497200-45500200	Weak transcription	Lung	lung
21	chr10:45497200-45504000	Weak transcription	Esophagus	oesophagus
22	chr10:45497400-45498000	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr10:45497400-45498000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr10:45497400-45498000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
25	chr10:45497400-45498000	Enhancers	Brain Hippocampus Middle	brain
26	chr10:45497400-45498200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr10:45497400-45498200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr10:45497400-45498200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr10:45497400-45498200	Flanking Active TSS	Fetal Heart	heart
30	chr10:45497400-45498400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr10:45497400-45498400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:45497400-45498400	Enhancers	Adipose Nuclei	Adipose
33	chr10:45497400-45498600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr10:45497400-45498800	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr10:45497400-45498800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr10:45497400-45498800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr10:45497400-45498800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr10:45497400-45498800	Weak transcription	Placenta	Placenta
39	chr10:45497400-45498800	Weak transcription	Left Ventricle	heart
40	chr10:45497400-45498800	Weak transcription	A549	lung
41	chr10:45497400-45499000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr10:45497400-45501200	Weak transcription	Aorta	Aorta
43	chr10:45497400-45501400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:45497400-45503800	Weak transcription	Brain Cingulate Gyrus	brain
45	chr10:45497400-45504000	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr10:45497400-45504000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr10:45497600-45498000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr10:45497600-45498000	Enhancers	Brain Anterior Caudate	brain
49	chr10:45497600-45498000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr10:45497600-45498000	Enhancers	Fetal Intestine Large	intestine

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