Variant report

Variant	rs28680574
Chromosome Location	chr1:214488946-214488947
allele	A/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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:214451643..214456693-chr1:214488650..214497237,17	MCF-7	breast:
2	chr1:214487556..214489408-chr1:214491187..214493754,2	K562	blood:
3	chr1:214488324..214490814-chr1:214493702..214496792,3	MCF-7	breast:
4	chr1:214464397..214467228-chr1:214488668..214491420,2	MCF-7	breast:
5	chr1:214454278..214456032-chr1:214487922..214490659,2	K562	blood:
6	chr1:214460531..214463477-chr1:214488827..214490849,2	MCF-7	breast:
7	chr1:214454828..214456756-chr1:214488349..214489973,2	MCF-7	breast:
8	chr1:214461471..214463452-chr1:214488205..214490327,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000143499	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11580360	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11589775	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12059328	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214455600-214489000	Weak transcription	Ovary	ovary
2	chr1:214456400-214491800	Weak transcription	Pancreas	Pancrea
3	chr1:214459200-214491400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr1:214462000-214491800	Weak transcription	NHEK	skin
5	chr1:214471000-214489000	Weak transcription	A549	lung
6	chr1:214471000-214489400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr1:214471000-214517400	Weak transcription	Fetal Kidney	kidney
8	chr1:214476600-214492200	Weak transcription	K562	blood
9	chr1:214477000-214489800	Weak transcription	NH-A	brain
10	chr1:214477200-214491600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:214477200-214492200	Weak transcription	Aorta	Aorta
12	chr1:214477400-214489800	Weak transcription	NHLF	lung
13	chr1:214477400-214492200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr1:214477400-214506400	Weak transcription	Colon Smooth Muscle	Colon
15	chr1:214477400-214506400	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr1:214477400-214511000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:214478800-214491800	Weak transcription	Spleen	Spleen
18	chr1:214478800-214492200	Weak transcription	Esophagus	oesophagus
19	chr1:214479000-214489000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr1:214479000-214503000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr1:214479200-214491800	Weak transcription	Lung	lung
22	chr1:214479400-214493000	Enhancers	Fetal Heart	heart
23	chr1:214479800-214490000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr1:214480200-214490800	Weak transcription	Fetal Intestine Small	intestine
25	chr1:214482200-214510600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr1:214483000-214490400	Enhancers	Liver	Liver
27	chr1:214483600-214492200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr1:214483600-214501600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr1:214483800-214489800	Weak transcription	Osteobl	bone
30	chr1:214484000-214490000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr1:214484400-214499800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr1:214484400-214510800	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr1:214484600-214490600	Weak transcription	GM12878-XiMat	blood
34	chr1:214484800-214491800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr1:214484800-214492200	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr1:214484800-214501800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr1:214484800-214507800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr1:214484800-214522000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr1:214485000-214491200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr1:214485000-214492200	Weak transcription	Fetal Brain Female	brain
41	chr1:214485000-214506400	Weak transcription	Rectal Smooth Muscle	rectum
42	chr1:214485000-214513200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr1:214485600-214499600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr1:214485800-214499600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr1:214486000-214490000	Weak transcription	HSMM	muscle
46	chr1:214486000-214492400	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr1:214486200-214491600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr1:214486200-214526000	Weak transcription	Psoas Muscle	Psoas
49	chr1:214486400-214489400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr1:214486400-214489600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links