Variant report

Variant	rs12979121
Chromosome Location	chr19:36904956-36904957
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	chr19:36884346..36886585-chr19:36904076..36906046,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12974922	0.85[EUR][1000 genomes]
rs12975337	0.85[EUR][1000 genomes]
rs12976232	0.85[EUR][1000 genomes]
rs12982193	0.85[EUR][1000 genomes]
rs12983243	0.85[EUR][1000 genomes]
rs17639717	0.80[EUR][1000 genomes]
rs34288068	0.80[EUR][1000 genomes]
rs34386841	0.80[EUR][1000 genomes]
rs34656490	0.85[EUR][1000 genomes]
rs34957973	0.85[EUR][1000 genomes]
rs35152981	0.85[EUR][1000 genomes]
rs35186959	0.90[EUR][1000 genomes]
rs35338669	0.80[EUR][1000 genomes]
rs35577694	0.80[EUR][1000 genomes]
rs35669779	0.85[EUR][1000 genomes]
rs35778194	0.85[EUR][1000 genomes]
rs35951452	0.81[EUR][1000 genomes]
rs36026111	0.85[EUR][1000 genomes]
rs4133047	0.85[EUR][1000 genomes]
rs55825342	0.80[EUR][1000 genomes]
rs71354192	0.80[EUR][1000 genomes]
rs71354194	0.85[EUR][1000 genomes]
rs71354195	0.85[EUR][1000 genomes]
rs7247321	0.80[EUR][1000 genomes]
rs7256914	0.85[EUR][1000 genomes]
rs7259940	0.80[EUR][1000 genomes]
rs7260462	0.80[EUR][1000 genomes]
rs8109676	0.85[EUR][1000 genomes]
rs8110644	0.80[EUR][1000 genomes]
rs8111836	0.80[EUR][1000 genomes]
rs8113338	0.80[EUR][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	nsv833816	chr19:36824257-37034287	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv1066026	chr19:36878441-36947928	ZNF genes & repeats Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1067101	chr19:36901010-36956251	ZNF genes & repeats Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36882200-36908800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr19:36882400-36907600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr19:36883000-36905200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
4	chr19:36885600-36908000	Weak transcription	K562	blood
5	chr19:36889800-36908200	Weak transcription	HepG2	liver
6	chr19:36891800-36908200	Weak transcription	Fetal Heart	heart
7	chr19:36891800-36908200	Weak transcription	Hela-S3	cervix
8	chr19:36895000-36908200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr19:36896600-36908200	Weak transcription	Right Ventricle	heart
10	chr19:36896600-36908400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr19:36897200-36908200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr19:36898400-36906800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr19:36898400-36908600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
14	chr19:36899000-36908200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr19:36899200-36908400	Weak transcription	NH-A	brain
16	chr19:36899800-36905600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr19:36899800-36908200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr19:36900000-36908200	Weak transcription	HUVEC	blood vessel
19	chr19:36900400-36908200	Weak transcription	Brain Substantia Nigra	brain
20	chr19:36900400-36908400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr19:36900600-36908000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr19:36900800-36908200	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr19:36900800-36908400	Weak transcription	Small Intestine	intestine
24	chr19:36901000-36907400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr19:36901000-36908000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr19:36901000-36908000	Weak transcription	Stomach Smooth Muscle	stomach
27	chr19:36901000-36908400	Weak transcription	Fetal Kidney	kidney
28	chr19:36901000-36908400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr19:36901000-36908400	Weak transcription	HSMMtube	muscle
30	chr19:36901200-36908000	Weak transcription	Brain Hippocampus Middle	brain
31	chr19:36901200-36908000	Weak transcription	Colon Smooth Muscle	Colon
32	chr19:36901200-36908200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr19:36901200-36908200	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr19:36901200-36908200	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr19:36901200-36908200	Weak transcription	Thymus	Thymus
36	chr19:36901200-36908400	Weak transcription	Colonic Mucosa	Colon
37	chr19:36901200-36908400	Weak transcription	Pancreas	Pancrea
38	chr19:36901200-36908400	Weak transcription	NHDF-Ad	bronchial
39	chr19:36901400-36908200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr19:36901400-36908200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr19:36901400-36908400	Weak transcription	Placenta	Placenta
42	chr19:36901800-36908400	Weak transcription	Left Ventricle	heart
43	chr19:36902000-36907600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr19:36902200-36905600	Strong transcription	Cortex derived primary cultured neurospheres	brain
45	chr19:36903200-36907400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
46	chr19:36903400-36906000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr19:36903400-36906000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr19:36903400-36907400	ZNF genes & repeats	Fetal Brain Female	brain
49	chr19:36903600-36905000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr19:36903600-36906600	ZNF genes & repeats	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links