Variant report

Variant	rs61848380
Chromosome Location	chr10:50285046-50285047
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:50277084..50281077-chr10:50281316..50285114,4	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10508911	0.93[EUR][1000 genomes]
rs10857434	0.90[EUR][1000 genomes]
rs11100985	0.92[EUR][1000 genomes]
rs11100994	0.88[EUR][1000 genomes]
rs11814668	0.88[EUR][1000 genomes]
rs11815070	0.88[EUR][1000 genomes]
rs12780892	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17011692	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17011715	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17011726	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17011755	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17011799	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17773666	0.95[EUR][1000 genomes]
rs28505677	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36116147	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4264085	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4272720	0.95[EUR][1000 genomes]
rs4453139	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs45563932	0.81[EUR][1000 genomes]
rs55648711	0.88[EUR][1000 genomes]
rs55872223	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55936311	0.88[EUR][1000 genomes]
rs56027486	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56157539	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56197478	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59889308	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61166027	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61848370	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61848371	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61848377	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61850681	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61850682	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61850684	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61850689	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61850690	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61850693	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7084861	0.85[EUR][1000 genomes]
rs72785044	0.95[EUR][1000 genomes]
rs72785050	0.88[EUR][1000 genomes]
rs72785051	0.88[EUR][1000 genomes]
rs72785060	0.89[EUR][1000 genomes]
rs72785072	0.87[EUR][1000 genomes]
rs72785076	0.88[EUR][1000 genomes]
rs72785084	0.86[EUR][1000 genomes]
rs72785087	0.86[EUR][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	nsv831866	chr10:50165180-50335276	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
2	esv2761593	chr10:50276812-50336129	Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61848380	C10orf128	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50266600-50289400	Weak transcription	Colonic Mucosa	Colon
2	chr10:50267200-50288400	Weak transcription	NHLF	lung
3	chr10:50271600-50285200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr10:50272600-50294200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:50273600-50289800	Weak transcription	NHDF-Ad	bronchial
6	chr10:50276600-50288200	Weak transcription	Gastric	stomach
7	chr10:50277600-50287200	Weak transcription	K562	blood
8	chr10:50279600-50285400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:50279600-50289200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr10:50279800-50285600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:50279800-50288600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr10:50280000-50285400	Strong transcription	Fetal Stomach	stomach
13	chr10:50280200-50285400	Strong transcription	Stomach Smooth Muscle	stomach
14	chr10:50280600-50288200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:50280600-50288600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:50280800-50285200	Weak transcription	Right Atrium	heart
17	chr10:50281000-50285200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:50281600-50285600	Genic enhancers	Fetal Muscle Leg	muscle
19	chr10:50281600-50288400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr10:50282400-50285600	Genic enhancers	Fetal Muscle Trunk	muscle
21	chr10:50282400-50289400	Weak transcription	Fetal Kidney	kidney
22	chr10:50282800-50285400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:50283200-50286000	Enhancers	Primary hematopoietic stem cells	blood
24	chr10:50283200-50287000	Weak transcription	Lung	lung
25	chr10:50283200-50288600	Weak transcription	Placenta	Placenta
26	chr10:50283200-50298200	Weak transcription	Spleen	Spleen
27	chr10:50283600-50285200	Strong transcription	Left Ventricle	heart
28	chr10:50283800-50285600	ZNF genes & repeats	Fetal Lung	lung
29	chr10:50284000-50285200	Strong transcription	HSMMtube	muscle
30	chr10:50284000-50288600	Weak transcription	Esophagus	oesophagus
31	chr10:50284200-50285400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr10:50284200-50288200	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:50284400-50285200	Genic enhancers	Skeletal Muscle Female	skeletal muscle
34	chr10:50284400-50285600	Flanking Active TSS	GM12878-XiMat	blood
35	chr10:50284600-50285200	Weak transcription	Pancreas	Pancrea
36	chr10:50284600-50285600	Enhancers	Fetal Thymus	thymus
37	chr10:50284600-50288400	Weak transcription	Aorta	Aorta
38	chr10:50284600-50288600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr10:50284800-50285200	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
40	chr10:50284800-50285400	Genic enhancers	Brain Angular Gyrus	brain
41	chr10:50284800-50285600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr10:50284800-50285800	Enhancers	Brain Substantia Nigra	brain
43	chr10:50284800-50287400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr10:50284800-50288200	Weak transcription	Colon Smooth Muscle	Colon
45	chr10:50284800-50292400	Enhancers	Liver	Liver
46	chr10:50285000-50285200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr10:50285000-50285200	Weak transcription	Adipose Nuclei	Adipose
48	chr10:50285000-50285200	Weak transcription	Brain Cingulate Gyrus	brain
49	chr10:50285000-50285200	Genic enhancers	Right Ventricle	heart
50	chr10:50285000-50285400	Genic enhancers	Ovary	ovary

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