Variant report

Variant	rs12026770
Chromosome Location	chr1:213179834-213179835
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:213179534..213181909-chr1:213222762..213224304,2	K562	blood:
2	chr1:213173397..213177142-chr1:213177865..213180247,3	MCF-7	breast:
3	chr1:213177958..213180453-chr1:213187324..213189747,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174606	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs1045868	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10864032	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10864033	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11120070	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11120076	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11120080	0.91[ASN][1000 genomes]
rs11120082	0.85[ASN][1000 genomes]
rs11120084	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12122955	0.81[ASN][1000 genomes]
rs12563167	0.81[ASN][1000 genomes]
rs1566248	0.82[ASN][1000 genomes]
rs3002284	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3104207	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3123307	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3738806	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4951477	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4951478	0.82[ASN][1000 genomes]
rs4951660	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6540774	0.83[ASN][1000 genomes]
rs6540776	0.82[ASN][1000 genomes]
rs6540777	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6671019	0.84[AMR][1000 genomes]
rs6697921	0.82[ASN][1000 genomes]
rs7537285	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7540350	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008594	chr1:213110654-213236750	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs12026770	ANGEL2	cis	Esophagus Mucosa	GTEx
rs12026770	ANGEL2	cis	Artery Tibial	GTEx
rs12026770	RPS6KC1	cis	Artery Tibial	GTEx
rs12026770	ANGEL2	Cis_1M	lymphoblastoid	RTeQTL
rs12026770	ANGEL2	cis	Nerve Tibial	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:213154600-213187400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr1:213154800-213188000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:213154800-213188400	Weak transcription	Spleen	Spleen
4	chr1:213155600-213188000	Weak transcription	Aorta	Aorta
5	chr1:213155600-213188000	Weak transcription	Esophagus	oesophagus
6	chr1:213156200-213187400	Weak transcription	Fetal Brain Male	brain
7	chr1:213156200-213188000	Weak transcription	Pancreas	Pancrea
8	chr1:213158400-213188000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:213160200-213188000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:213160400-213187200	Weak transcription	NHLF	lung
11	chr1:213162000-213184600	Weak transcription	Psoas Muscle	Psoas
12	chr1:213162200-213188000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr1:213162800-213181200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr1:213162800-213183000	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr1:213163200-213187400	Weak transcription	Stomach Mucosa	stomach
16	chr1:213165400-213181600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr1:213166000-213182200	Strong transcription	Fetal Intestine Large	intestine
18	chr1:213166000-213184200	Weak transcription	HepG2	liver
19	chr1:213167000-213181000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr1:213167600-213182600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:213167800-213187000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr1:213167800-213187000	Weak transcription	Fetal Heart	heart
23	chr1:213167800-213187800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr1:213168200-213181800	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr1:213168600-213183000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr1:213169000-213182600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr1:213169000-213186800	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr1:213169000-213187200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr1:213169000-213187800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr1:213169800-213186400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:213170000-213188000	Weak transcription	Colonic Mucosa	Colon
32	chr1:213170600-213187800	Weak transcription	Fetal Kidney	kidney
33	chr1:213170800-213180200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr1:213172200-213180400	Strong transcription	Fetal Muscle Leg	muscle
35	chr1:213172400-213181800	Strong transcription	Fetal Thymus	thymus
36	chr1:213172600-213182800	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr1:213172800-213180800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr1:213172800-213181400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr1:213172800-213182600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr1:213173000-213180800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr1:213173000-213182000	Strong transcription	Primary hematopoietic stem cells	blood
42	chr1:213173000-213182400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr1:213173000-213183000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr1:213173000-213183400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
45	chr1:213173000-213186800	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr1:213173000-213187000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr1:213173200-213182000	Strong transcription	Liver	Liver
48	chr1:213173200-213183000	Strong transcription	Dnd41	blood
49	chr1:213173400-213182200	Strong transcription	Primary B cells from cord blood	blood
50	chr1:213173600-213182200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links