Variant report

Variant	rs10401407
Chromosome Location	chr19:18822131-18822132
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10404680	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10405575	1.00[AMR][1000 genomes]
rs10409207	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409236	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10413878	1.00[AMR][1000 genomes]
rs10420179	1.00[AMR][1000 genomes]
rs28379803	1.00[AMR][1000 genomes]
rs7252631	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73535835	1.00[AMR][1000 genomes]
rs73537951	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8100814	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057795	chr19:18453362-18883844	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv543925	chr19:18453362-18883844	Weak transcription Genic enhancers Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv911282	chr19:18624964-18928480	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv960927	chr19:18808010-18837082	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:18797200-18822400	Weak transcription	HepG2	liver
2	chr19:18812000-18844200	Weak transcription	Fetal Kidney	kidney
3	chr19:18812200-18823600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr19:18812400-18824000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr19:18812400-18824000	Weak transcription	Fetal Brain Female	brain
6	chr19:18812400-18827600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr19:18812400-18827800	Weak transcription	Brain Germinal Matrix	brain
8	chr19:18812600-18825800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr19:18812600-18828200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr19:18818000-18836600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr19:18818600-18822400	Enhancers	Primary T cells fromperipheralblood	blood
12	chr19:18818800-18823600	Enhancers	Fetal Muscle Trunk	muscle
13	chr19:18819000-18824000	Enhancers	Fetal Muscle Leg	muscle
14	chr19:18819000-18844000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr19:18819600-18824400	Weak transcription	Aorta	Aorta
16	chr19:18819800-18822600	Enhancers	Adipose Nuclei	Adipose
17	chr19:18819800-18823800	Weak transcription	Pancreas	Pancrea
18	chr19:18820000-18822600	Enhancers	Spleen	Spleen
19	chr19:18820000-18822800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr19:18820000-18826400	Weak transcription	Thymus	Thymus
21	chr19:18820000-18826600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr19:18820200-18823800	Weak transcription	Brain Anterior Caudate	brain
23	chr19:18820200-18823800	Weak transcription	Brain Hippocampus Middle	brain
24	chr19:18820400-18823800	Weak transcription	Brain Angular Gyrus	brain
25	chr19:18820400-18833000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr19:18820400-18837000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr19:18820400-18847200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr19:18820600-18823800	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr19:18820600-18846600	Weak transcription	Esophagus	oesophagus
30	chr19:18820800-18828200	Weak transcription	Gastric	stomach
31	chr19:18820800-18832800	Weak transcription	HSMM	muscle
32	chr19:18821000-18822800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr19:18821000-18822800	Enhancers	Fetal Lung	lung
34	chr19:18821000-18822800	Enhancers	Placenta	Placenta
35	chr19:18821000-18824000	Weak transcription	Primary T cells from cord blood	blood
36	chr19:18821200-18823800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr19:18821200-18824000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr19:18821200-18824000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr19:18821200-18824000	Weak transcription	Left Ventricle	heart
40	chr19:18821200-18824000	Weak transcription	Right Ventricle	heart
41	chr19:18821200-18824000	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr19:18821200-18824200	Weak transcription	Lung	lung
43	chr19:18821200-18824400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr19:18821200-18827800	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr19:18821200-18828400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr19:18821200-18828600	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr19:18821200-18829000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr19:18821200-18833000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr19:18821200-18834400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr19:18821200-18844000	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links