Variant report

Variant	rs558375977
Chromosome Location	chr19:40477216-40477217
allele	C/G
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:40475224..40479165-chr19:40500138..40503908,5	MCF-7	breast:
2	chr19:40475779..40479202-chr19:40484390..40487184,3	MCF-7	breast:
3	chr19:40476074..40478265-chr19:40727904..40730547,2	K562	blood:
4	chr19:40471803..40479510-chr19:40500414..40506141,13	K562	blood:
5	chr19:40476701..40477573-chr2:58468129..58468983,2	Hela-S3	cervix:
6	chr19:40474074..40479560-chr19:40500872..40505885,15	K562	blood:
7	chr19:40335423..40338376-chr19:40475745..40478585,3	MCF-7	breast:
8	chr19:40476601..40478274-chr19:40696597..40698505,2	MCF-7	breast:
9	chr19:40476652..40477565-chr8:134309018..134309549,2	Hela-S3	cervix:
10	chr19:40475223..40478471-chr19:40501440..40504433,4	MCF-7	breast:
11	chr19:40475627..40477448-chr19:40488528..40491173,2	MCF-7	breast:
12	chr19:40476948..40477839-chr20:31349807..31350601,2	HCT-116	colon:
13	chr19:40473089..40482317-chr19:40483091..40492558,21	K562	blood:

No data

Variant related genes	Relation type
ENSG00000013275	Chromatin interaction
ENSG00000104419	Chromatin interaction
ENSG00000187187	Chromatin interaction
ENSG00000088305	Chromatin interaction
ENSG00000115392	Chromatin interaction
ENSG00000130758	Chromatin interaction
ENSG00000105202	Chromatin interaction
ENSG00000105219	Chromatin interaction
ENSG00000273063	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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	esv2758498	chr19:40227904-40521130	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv2758760	chr19:40227904-40521130	Genic enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv428022	chr19:40227904-40521130	Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv917321	chr19:40403192-40694875	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv9726	chr19:40476453-40478048	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:40475800-40477600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr19:40475800-40477600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr19:40475800-40477600	Active TSS	NHEK	skin
4	chr19:40476000-40477400	Active TSS	Brain Germinal Matrix	brain
5	chr19:40476000-40477400	Active TSS	Thymus	Thymus
6	chr19:40476000-40477600	Active TSS	Brain Cingulate Gyrus	brain
7	chr19:40476000-40477600	Active TSS	Fetal Lung	lung
8	chr19:40476000-40477600	Active TSS	Fetal Stomach	stomach
9	chr19:40476000-40477600	Active TSS	Right Ventricle	heart
10	chr19:40476000-40477800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr19:40476000-40477800	Active TSS	iPS-15b Cell Line	embryonic stem cell
12	chr19:40476000-40477800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
13	chr19:40476000-40477800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr19:40476000-40477800	Active TSS	Pancreatic Islets	Pancreatic Islet
15	chr19:40476000-40477800	Active TSS	Small Intestine	intestine
16	chr19:40476000-40477800	Active TSS	NHDF-Ad	bronchial
17	chr19:40476000-40477800	Active TSS	NHLF	lung
18	chr19:40476000-40478000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr19:40476000-40478000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr19:40476000-40478000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr19:40476000-40478000	Active TSS	HUES6 Cell Line	embryonic stem cell
22	chr19:40476000-40478000	Active TSS	HUES64 Cell Line	embryonic stem cell
23	chr19:40476000-40478000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr19:40476000-40478000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr19:40476000-40478000	Active TSS	Psoas Muscle	Psoas
26	chr19:40476000-40478000	Active TSS	HSMM	muscle
27	chr19:40476000-40478200	Active TSS	H9 Cell Line	embryonic stem cell
28	chr19:40476000-40478200	Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr19:40476000-40478200	Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr19:40476000-40478200	Active TSS	iPS-20b Cell Line	embryonic stem cell
31	chr19:40476000-40478200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr19:40476000-40478200	Active TSS	Right Atrium	heart
33	chr19:40476200-40477600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr19:40476200-40477600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr19:40476200-40477600	Active TSS	Fetal Brain Male	brain
36	chr19:40476200-40477600	Active TSS	Fetal Heart	heart
37	chr19:40476200-40477600	Active TSS	Ovary	ovary
38	chr19:40476200-40477600	Active TSS	Spleen	Spleen
39	chr19:40476200-40477800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
40	chr19:40476200-40477800	Active TSS	Breast Myoepithelial Primary Cells	Breast
41	chr19:40476200-40477800	Active TSS	K562	blood
42	chr19:40476200-40478000	Active TSS	H1 Cell Line	embryonic stem cell
43	chr19:40476200-40478000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr19:40476200-40478000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr19:40476200-40478000	Active TSS	Left Ventricle	heart
46	chr19:40476200-40478000	Active TSS	Lung	lung
47	chr19:40476200-40478000	Active TSS	GM12878-XiMat	blood
48	chr19:40476200-40478200	Active TSS	ES-I3 Cell Line	embryonic stem cell
49	chr19:40476200-40478200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr19:40476200-40478200	Active TSS	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links