Variant report

Variant	rs58179637
Chromosome Location	chr19:19602300-19602301
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:19592516..19594242-chr19:19599876..19602592,3	K562	blood:
2	chr19:19600810..19602736-chr19:19605052..19607222,2	MCF-7	breast:
3	chr1:11968022..11970683-chr19:19599889..19602380,2	K562	blood:
4	chr19:19430093..19431737-chr19:19601743..19604331,2	MCF-7	breast:
5	chr19:19514390..19517694-chr19:19598526..19603373,7	K562	blood:
6	chr19:19514543..19521149-chr19:19597604..19603543,11	MCF-7	breast:
7	chr19:19518514..19520258-chr19:19600327..19603326,2	K562	blood:
8	chr19:19591413..19595730-chr19:19599673..19603116,5	K562	blood:
9	chr19:19599544..19602338-chr19:19603143..19607030,3	K562	blood:
10	chr19:19601157..19602783-chr19:19607744..19610497,2	MCF-7	breast:
11	chr19:19599775..19602581-chr19:19615746..19617390,2	K562	blood:
12	chr19:19512387..19516113-chr19:19599721..19602821,4	MCF-7	breast:
13	chr19:19600776..19602800-chr19:19608797..19611628,2	K562	blood:
14	chr19:19601950..19605633-chr19:19625984..19629192,3	K562	blood:
15	chr19:19513509..19518475-chr19:19595979..19603373,11	K562	blood:
16	chr19:19486238..19488843-chr19:19600330..19602869,2	MCF-7	breast:
17	chr19:19600750..19602890-chr19:19604803..19607283,5	K562	blood:
18	chr19:19493350..19496706-chr19:19599997..19602939,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000201801	Chromatin interaction
ENSG00000129933	Chromatin interaction
ENSG00000267234	Chromatin interaction
ENSG00000199347	Chromatin interaction
ENSG00000258674	Chromatin interaction
ENSG00000178093	Chromatin interaction
ENSG00000186010	Chromatin interaction
ENSG00000167491	Chromatin interaction
ENSG00000105705	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11878997	1.00[AMR][1000 genomes]
rs11879483	1.00[AMR][1000 genomes]
rs28808149	1.00[AMR][1000 genomes]
rs56786913	1.00[AMR][1000 genomes]
rs57321153	1.00[AMR][1000 genomes]
rs58210809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59432787	1.00[AMR][1000 genomes]
rs60542032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60635681	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61418834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61687899	1.00[AMR][1000 genomes]
rs7247854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73524674	1.00[AMR][1000 genomes]
rs73524684	1.00[AMR][1000 genomes]
rs73528412	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73530412	1.00[AMR][1000 genomes]
rs73530428	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73530433	1.00[AMR][1000 genomes]
rs73532115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532149	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73537224	0.93[AFR][1000 genomes]
rs73537243	0.85[AFR][1000 genomes]
rs73539469	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	esv1828240	chr19:19591146-19900900	Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1063273	chr19:19591146-20061367	ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19599000-19618000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr19:19600800-19602600	Enhancers	Liver	Liver
3	chr19:19600800-19602800	Weak transcription	Fetal Brain Female	brain
4	chr19:19600800-19602800	Genic enhancers	Fetal Muscle Leg	muscle
5	chr19:19600800-19619400	Strong transcription	Dnd41	blood
6	chr19:19601000-19603800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr19:19601000-19606800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr19:19601000-19624600	Weak transcription	Fetal Brain Male	brain
9	chr19:19601200-19602400	Weak transcription	Esophagus	oesophagus
10	chr19:19601200-19602600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr19:19601200-19602800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr19:19601200-19602800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr19:19601200-19602800	Weak transcription	Colonic Mucosa	Colon
14	chr19:19601200-19603000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr19:19601200-19603000	Weak transcription	Right Ventricle	heart
16	chr19:19601200-19603200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr19:19601200-19603200	Weak transcription	Lung	lung
18	chr19:19601200-19603400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr19:19601200-19603400	Weak transcription	Ovary	ovary
20	chr19:19601200-19603400	Weak transcription	HMEC	breast
21	chr19:19601200-19604000	Weak transcription	Small Intestine	intestine
22	chr19:19601200-19604800	Weak transcription	HSMMtube	muscle
23	chr19:19601200-19605200	Weak transcription	Aorta	Aorta
24	chr19:19601200-19624800	Weak transcription	Fetal Kidney	kidney
25	chr19:19601200-19624800	Weak transcription	Right Atrium	heart
26	chr19:19601400-19602600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr19:19601400-19602600	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr19:19601400-19602800	Weak transcription	Brain Cingulate Gyrus	brain
29	chr19:19601400-19602800	Weak transcription	Pancreas	Pancrea
30	chr19:19601400-19602800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr19:19601400-19603000	Weak transcription	Brain Angular Gyrus	brain
32	chr19:19601400-19603000	Weak transcription	Brain Germinal Matrix	brain
33	chr19:19601400-19603000	Weak transcription	Fetal Lung	lung
34	chr19:19601400-19603000	Weak transcription	GM12878-XiMat	blood
35	chr19:19601400-19603200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr19:19601400-19603200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr19:19601400-19603200	Weak transcription	Left Ventricle	heart
38	chr19:19601400-19603200	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr19:19601400-19603400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr19:19601400-19603400	Weak transcription	HSMM	muscle
41	chr19:19601400-19604000	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr19:19601400-19604000	Weak transcription	HUVEC	blood vessel
43	chr19:19601400-19604200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr19:19601400-19604200	Weak transcription	NH-A	brain
45	chr19:19601400-19604200	Weak transcription	NHDF-Ad	bronchial
46	chr19:19601400-19604800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr19:19601400-19604800	Weak transcription	Brain Hippocampus Middle	brain
48	chr19:19601400-19604800	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr19:19601400-19604800	Weak transcription	Hela-S3	cervix
50	chr19:19601400-19605000	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links