Variant report

Variant	rs34096655
Chromosome Location	chr19:19728071-19728072
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	chr19:19727841..19730107-chr19:19763060..19764845,2	MCF-7	breast:
2	chr19:19651405..19654732-chr19:19727842..19732175,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105726	Chromatin interaction
ENSG00000160161	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12611058	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12974028	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12977917	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12981270	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12982628	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12985142	0.88[EUR][1000 genomes]
rs1476459	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs33982830	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34316070	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34316527	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34324119	0.90[EUR][1000 genomes]
rs34424437	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35209041	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35437712	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35553578	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35842591	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56083851	0.93[EUR][1000 genomes]
rs62134460	0.92[EUR][1000 genomes]
rs62137783	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62137816	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62137820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62137822	0.94[EUR][1000 genomes]
rs7247165	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73004920	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs750216	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][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	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
2	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
3	nsv911309	chr19:19727042-19784891	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19706600-19728200	Weak transcription	Fetal Brain Male	brain
2	chr19:19707600-19728600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr19:19714000-19728800	Weak transcription	Brain Anterior Caudate	brain
4	chr19:19717400-19728200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr19:19717400-19728600	Weak transcription	Esophagus	oesophagus
6	chr19:19719600-19729000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr19:19719800-19728600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr19:19719800-19728600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr19:19719800-19728800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr19:19720000-19728400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr19:19723600-19728400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr19:19724400-19728200	Enhancers	Primary T cells fromperipheralblood	blood
13	chr19:19724400-19728600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr19:19724600-19728600	Weak transcription	Fetal Stomach	stomach
15	chr19:19724600-19729000	Weak transcription	Osteobl	bone
16	chr19:19724800-19728400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr19:19724800-19728400	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr19:19724800-19728400	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr19:19724800-19728600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr19:19724800-19728600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr19:19724800-19728600	Weak transcription	Fetal Muscle Leg	muscle
22	chr19:19724800-19728800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr19:19724800-19728800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr19:19724800-19728800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr19:19725000-19728600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr19:19725000-19728600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr19:19725000-19728600	Weak transcription	Gastric	stomach
28	chr19:19725000-19728600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr19:19725000-19728800	Weak transcription	Fetal Kidney	kidney
30	chr19:19725000-19728800	Weak transcription	HSMM	muscle
31	chr19:19725000-19728800	Weak transcription	NHEK	skin
32	chr19:19725000-19729000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr19:19725000-19729000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr19:19725200-19728800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr19:19725600-19728800	Weak transcription	A549	lung
36	chr19:19725800-19728800	Weak transcription	HMEC	breast
37	chr19:19726200-19728600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr19:19726400-19728400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr19:19726400-19729000	Weak transcription	HSMMtube	muscle
40	chr19:19726800-19728600	Weak transcription	Hela-S3	cervix
41	chr19:19726800-19728800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr19:19726800-19729000	Weak transcription	Lung	lung
43	chr19:19727000-19728400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr19:19727000-19728400	Weak transcription	NHDF-Ad	bronchial
45	chr19:19727000-19728800	Weak transcription	Fetal Lung	lung
46	chr19:19727000-19728800	Weak transcription	Spleen	Spleen
47	chr19:19727000-19729000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr19:19727000-19729000	Weak transcription	Small Intestine	intestine
49	chr19:19727000-19729200	Weak transcription	Psoas Muscle	Psoas
50	chr19:19727000-19730200	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links