Variant report

Variant	rs61832957
Chromosome Location	chr10:5940718-5940719
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:7)
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	POLR2A	chr10:5940674-5941419	K562	blood:	n/a	n/a
2	POLR2A	chr10:5940669-5940844	HepG2	liver:	n/a	n/a
3	POLR2A	chr10:5940571-5940969	K562	blood:	n/a	n/a
4	POLR2A	chr10:5940635-5940882	ECC-1	luminal epithelium:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5940356..5945616-chr10:5946052..5950228,5	K562	blood:
2	chr10:5916960..5919162-chr10:5939258..5940829,2	K562	blood:
3	chr10:5939649..5941225-chr10:5989883..5992234,2	K562	blood:
4	chr10:5934666..5939071-chr10:5940230..5944610,6	MCF-7	breast:
5	chr10:5940113..5941685-chr10:5944355..5946224,2	MCF-7	breast:
6	chr10:5939831..5941896-chr10:5955993..5958774,2	MCF-7	breast:
7	chr10:5939207..5941902-chr10:5943470..5945355,2	MCF-7	breast:

No data

Variant related genes	Relation type
FBXO18	TF binding region
ENSG00000134452	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11818118	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs41290313	0.83[EUR][1000 genomes]
rs41290315	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41302974	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55696216	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61832956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61832958	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61834494	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61834496	0.83[EUR][1000 genomes]
rs61834504	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61834507	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61834508	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7088087	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7091091	1.00[AMR][1000 genomes];0.96[EUR][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	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv825229	chr10:5886905-5967697	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5933200-5948200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:5933200-5949800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr10:5933200-5977000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr10:5933400-5948200	Weak transcription	Ovary	ovary
5	chr10:5933400-5948400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr10:5933400-5949800	Weak transcription	Fetal Brain Male	brain
7	chr10:5933600-5948200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr10:5933600-5951600	Weak transcription	Stomach Mucosa	stomach
9	chr10:5933800-5941200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr10:5934600-5941000	Strong transcription	NHEK	skin
11	chr10:5934800-5948000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr10:5935200-5941800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:5935200-5947400	Weak transcription	Small Intestine	intestine
14	chr10:5935400-5941200	Strong transcription	Fetal Lung	lung
15	chr10:5935600-5943000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr10:5935600-5962000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:5936000-5940800	Transcr. at gene 5' and 3'	K562	blood
18	chr10:5936000-5941000	Strong transcription	Liver	Liver
19	chr10:5936200-5941000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr10:5936200-5941000	Strong transcription	Fetal Muscle Trunk	muscle
21	chr10:5936400-5941000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr10:5936600-5952600	Weak transcription	Hela-S3	cervix
23	chr10:5936800-5953200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr10:5937000-5941000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr10:5937200-5947600	Weak transcription	Psoas Muscle	Psoas
26	chr10:5937200-5948000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr10:5937200-5948000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr10:5937200-5948400	Weak transcription	Fetal Kidney	kidney
29	chr10:5937400-5948200	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr10:5937800-5947600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr10:5937800-5947600	Weak transcription	HSMM	muscle
32	chr10:5937800-5948000	Weak transcription	Brain Angular Gyrus	brain
33	chr10:5937800-5948200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr10:5938000-5947600	Weak transcription	HSMMtube	muscle
35	chr10:5938000-5947800	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr10:5938000-5948000	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr10:5938000-5948200	Weak transcription	HMEC	breast
38	chr10:5938000-5950800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr10:5938200-5944000	Weak transcription	Brain Hippocampus Middle	brain
40	chr10:5938200-5947200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr10:5938200-5947600	Weak transcription	Brain Anterior Caudate	brain
42	chr10:5938200-5947800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:5938200-5948000	Weak transcription	Aorta	Aorta
44	chr10:5938200-5950800	Weak transcription	NH-A	brain
45	chr10:5938400-5944000	Weak transcription	Pancreas	Pancrea
46	chr10:5938400-5945800	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr10:5938400-5947000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr10:5938400-5947600	Weak transcription	HepG2	liver
49	chr10:5938400-5947800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr10:5938400-5948000	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links