Variant report

Variant	rs11264221
Chromosome Location	chr1:154551717-154551718
allele	C/T
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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:154529851..154531893-chr1:154548972..154552165,3	MCF-7	breast:
2	chr1:154543850..154545419-chr1:154550254..154552123,2	MCF-7	breast:
3	chr1:154539579..154545447-chr1:154547241..154552773,6	K562	blood:
4	chr1:154550052..154552028-chr1:154552192..154555232,3	K562	blood:
5	chr1:154549225..154551805-chr1:154575345..154579789,4	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ADAR-1	chr1:154551541-154551814	ENSG00000233875.1

No data

Variant related genes	Relation type
ENSG00000160716	Chromatin interaction
ENSG00000160714	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11264231	0.81[AFR][1000 genomes]
rs11264232	0.97[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.81[AFR][1000 genomes]
rs11806816	0.81[AFR][1000 genomes]
rs12079381	0.81[AFR][1000 genomes]
rs12086987	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090237	1.00[MEX][hapmap]
rs12092890	0.81[LWK][hapmap]
rs12094866	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1542796	0.83[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2172708	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6677920	0.88[ASW][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6683149	0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6690277	0.88[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7513474	0.82[AFR][1000 genomes]
rs9427095	0.91[AFR][1000 genomes];1.00[AMR][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	nsv948413	chr1:153974621-154797272	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	132 gene(s)	inside rSNPs	diseases
2	nsv521887	chr1:154236570-154684106	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv532579	chr1:154548165-155262692	Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	575 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:154545400-154561800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:154545600-154552400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:154547800-154553200	Weak transcription	Fetal Heart	heart
4	chr1:154547800-154578400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:154548000-154552800	Weak transcription	Fetal Brain Male	brain
6	chr1:154548000-154555200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:154548000-154571800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr1:154548200-154575400	Strong transcription	Fetal Brain Female	brain
9	chr1:154548400-154552800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr1:154548600-154551800	Weak transcription	HepG2	liver
11	chr1:154548800-154575400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr1:154548800-154577400	Strong transcription	Fetal Intestine Small	intestine
13	chr1:154549000-154551800	Weak transcription	Small Intestine	intestine
14	chr1:154549000-154552200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:154549200-154575800	Strong transcription	Brain Germinal Matrix	brain
16	chr1:154549400-154572200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr1:154549400-154575400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:154549400-154576200	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr1:154549400-154576200	Strong transcription	Primary T cells from cord blood	blood
20	chr1:154549400-154578000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr1:154549600-154552800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr1:154549600-154552800	Genic enhancers	Fetal Muscle Trunk	muscle
23	chr1:154549600-154572000	Strong transcription	Primary neutrophils fromperipheralblood	blood
24	chr1:154549600-154575200	Strong transcription	Fetal Intestine Large	intestine
25	chr1:154549600-154576400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr1:154549800-154552000	Enhancers	Right Atrium	heart
27	chr1:154549800-154552400	Genic enhancers	Fetal Muscle Leg	muscle
28	chr1:154549800-154576400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr1:154549800-154576800	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr1:154550000-154551800	Genic enhancers	Fetal Stomach	stomach
31	chr1:154550000-154553600	Weak transcription	Hela-S3	cervix
32	chr1:154550000-154556400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr1:154550000-154570600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr1:154550000-154571000	Strong transcription	Brain Inferior Temporal Lobe	brain
35	chr1:154550000-154571400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr1:154550000-154574600	Strong transcription	A549	lung
37	chr1:154550200-154552000	Genic enhancers	Spleen	Spleen
38	chr1:154550200-154571800	Strong transcription	Fetal Thymus	thymus
39	chr1:154550200-154575200	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr1:154550200-154575200	Strong transcription	Placenta Amnion	Placenta Amnion
41	chr1:154550200-154576200	Strong transcription	Thymus	Thymus
42	chr1:154550200-154576400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr1:154550400-154551800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
44	chr1:154550400-154552600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr1:154550400-154557200	Strong transcription	GM12878-XiMat	blood
46	chr1:154550400-154566200	Strong transcription	Primary hematopoietic stem cells	blood
47	chr1:154550400-154566200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr1:154550400-154567800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr1:154550400-154571000	Strong transcription	Brain Hippocampus Middle	brain
50	chr1:154550400-154571400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links