Variant report

Variant	rs436739
Chromosome Location	chr19:44495553-44495554
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	chr19:44488273..44490047-chr19:44492744..44495947,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204920	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs370809	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs381091	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381628	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381759	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381888	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381983	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs382255	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs391267	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392889	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs393195	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs393536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs395803	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs396116	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs396148	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs396497	0.89[EUR][1000 genomes]
rs396786	0.89[EUR][1000 genomes]
rs397683	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs402785	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs405763	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs414402	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs419839	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs420355	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs420584	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs421505	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs431509	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs436790	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs448692	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][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	nsv469650	chr19:44405994-44555426	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv960850	chr19:44495440-44496048	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44489200-44496000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr19:44489200-44496000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr19:44489200-44496000	Weak transcription	Small Intestine	intestine
4	chr19:44489200-44496600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr19:44489200-44500400	Weak transcription	HUVEC	blood vessel
6	chr19:44489200-44506200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr19:44489200-44506200	Weak transcription	Hela-S3	cervix
8	chr19:44489400-44495600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr19:44489400-44496600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr19:44489600-44495600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr19:44489600-44496000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr19:44489600-44496200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr19:44489600-44506200	Weak transcription	HepG2	liver
14	chr19:44491000-44500200	Strong transcription	Fetal Lung	lung
15	chr19:44491000-44501600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
16	chr19:44491000-44503400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr19:44491000-44503800	ZNF genes & repeats	Liver	Liver
18	chr19:44491400-44503400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
19	chr19:44491600-44500000	Strong transcription	Primary T cells from cord blood	blood
20	chr19:44491600-44501800	Strong transcription	Brain Hippocampus Middle	brain
21	chr19:44491800-44502200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr19:44492000-44502000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr19:44492200-44499600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr19:44492200-44500200	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr19:44492200-44500400	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr19:44492200-44501400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr19:44492400-44497400	Strong transcription	Rectal Smooth Muscle	rectum
28	chr19:44492400-44499200	Strong transcription	Brain Inferior Temporal Lobe	brain
29	chr19:44492400-44501000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr19:44492400-44501400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr19:44492400-44501400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr19:44492400-44501800	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr19:44492400-44501800	Strong transcription	Brain Cingulate Gyrus	brain
34	chr19:44492400-44502000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr19:44492400-44502200	Strong transcription	Fetal Intestine Large	intestine
36	chr19:44492400-44502200	Strong transcription	HSMM	muscle
37	chr19:44492400-44502400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr19:44492400-44502400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr19:44492400-44502600	Strong transcription	Fetal Muscle Trunk	muscle
40	chr19:44492600-44496000	Strong transcription	Adipose Nuclei	Adipose
41	chr19:44492600-44496000	Strong transcription	Duodenum Mucosa	Duodenum
42	chr19:44492600-44496200	Strong transcription	Psoas Muscle	Psoas
43	chr19:44492600-44496400	Strong transcription	Stomach Smooth Muscle	stomach
44	chr19:44492600-44496800	Strong transcription	Brain Germinal Matrix	brain
45	chr19:44492600-44497400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr19:44492600-44498600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr19:44492600-44499600	Strong transcription	Left Ventricle	heart
48	chr19:44492600-44500200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr19:44492600-44500200	Strong transcription	Primary B cells from peripheral blood	blood
50	chr19:44492600-44500200	Strong transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links