Variant report

Variant	rs553669879
Chromosome Location	chr19:42411210-42411211
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:42411008..42413739-chr19:42433473..42435973,2	K562	blood:
2	chr19:42364123..42365765-chr19:42410876..42413809,2	K562	blood:
3	chr19:42406370..42409595-chr19:42409748..42413169,6	K562	blood:
4	chr19:42398848..42401100-chr19:42409902..42411983,2	MCF-7	breast:
5	chr19:42411044..42412628-chr19:42460867..42463407,2	K562	blood:
6	chr19:42386808..42388903-chr19:42409471..42412143,2	K562	blood:
7	chr19:42407772..42411584-chr19:42411987..42415149,3	MCF-7	breast:
8	chr19:42363979..42365756-chr19:42409559..42411922,2	MCF-7	breast:
9	chr19:42400409..42404033-chr19:42410840..42416491,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000105372	Chromatin interaction
ENSG00000105404	Chromatin interaction
ENSG00000076928	Chromatin interaction
ENSG00000268041	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv1061878	chr19:42325490-42416056	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv911776	chr19:42343526-42416056	Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv911777	chr19:42357455-42521108	Bivalent/Poised TSS Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv520239	chr19:42357455-42931004	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats 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
6	nsv911778	chr19:42358362-42416056	Strong transcription Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
7	esv1805469	chr19:42367635-42798851	Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
8	nsv911780	chr19:42398450-42521108	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
9	nsv911781	chr19:42398450-42542999	Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
10	esv3423326	chr19:42410937-42413485	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
11	esv3444529	chr19:42411162-42413160	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42389200-42429200	Weak transcription	Right Atrium	heart
2	chr19:42389400-42411400	Weak transcription	Fetal Brain Male	brain
3	chr19:42392000-42412600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr19:42392000-42412600	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr19:42392000-42412600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr19:42392200-42412400	Strong transcription	Fetal Muscle Leg	muscle
7	chr19:42392200-42412800	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr19:42392400-42412400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr19:42392400-42413200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr19:42392600-42411800	Strong transcription	Placenta	Placenta
11	chr19:42392600-42413600	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr19:42393400-42413600	Strong transcription	Thymus	Thymus
13	chr19:42393800-42413000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr19:42394000-42413000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr19:42395600-42412400	Strong transcription	Right Ventricle	heart
16	chr19:42395800-42411600	Strong transcription	Duodenum Smooth Muscle	Duodenum
17	chr19:42395800-42411800	Strong transcription	Fetal Brain Female	brain
18	chr19:42396000-42411800	Strong transcription	Brain Hippocampus Middle	brain
19	chr19:42396000-42412000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr19:42396800-42415200	Strong transcription	Dnd41	blood
21	chr19:42397400-42411600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr19:42397400-42413600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr19:42397600-42412800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr19:42398000-42411400	Strong transcription	Aorta	Aorta
25	chr19:42398000-42411400	Strong transcription	Esophagus	oesophagus
26	chr19:42398800-42412600	Strong transcription	Spleen	Spleen
27	chr19:42398800-42414000	Strong transcription	Fetal Thymus	thymus
28	chr19:42400200-42412400	Strong transcription	Fetal Muscle Trunk	muscle
29	chr19:42400400-42411600	Strong transcription	Primary B cells from peripheral blood	blood
30	chr19:42401600-42411400	Strong transcription	Brain Inferior Temporal Lobe	brain
31	chr19:42401800-42411400	Strong transcription	Skeletal Muscle Female	skeletal muscle
32	chr19:42401800-42411800	Strong transcription	Muscle Satellite Cultured Cells	--
33	chr19:42401800-42412400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr19:42401800-42412600	Strong transcription	Ovary	ovary
35	chr19:42402000-42411800	Strong transcription	Placenta Amnion	Placenta Amnion
36	chr19:42402200-42411800	Strong transcription	Brain Substantia Nigra	brain
37	chr19:42402200-42412000	Strong transcription	Primary T cells from cord blood	blood
38	chr19:42402400-42411400	Strong transcription	Brain Angular Gyrus	brain
39	chr19:42402800-42411800	Strong transcription	Adipose Nuclei	Adipose
40	chr19:42403000-42412600	Weak transcription	Psoas Muscle	Psoas
41	chr19:42403000-42413200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr19:42404000-42411600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr19:42404000-42411600	Strong transcription	Left Ventricle	heart
44	chr19:42404000-42411600	Strong transcription	Stomach Smooth Muscle	stomach
45	chr19:42404000-42412000	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr19:42405400-42412400	Strong transcription	Brain Germinal Matrix	brain
47	chr19:42405600-42411600	Genic enhancers	Primary T cells fromperipheralblood	blood
48	chr19:42405600-42411800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr19:42405600-42411800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr19:42405800-42411600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links