Variant report

Variant	rs4247000
Chromosome Location	chr14:24771137-24771138
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA2	chr14:24771047-24771555	SH-SY5Y	brain:	n/a	n/a

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:24702582..24706480-chr14:24770203..24773016,3	K562	blood:
2	chr14:24770771..24773074-chr14:24835790..24837584,2	MCF-7	breast:
3	chr14:24769506..24771314-chr14:24788379..24791495,3	K562	blood:
4	chr14:24769037..24771886-chr14:24904413..24906460,2	MCF-7	breast:
5	chr14:24701050..24707093-chr14:24765824..24771703,7	K562	blood:
6	chr14:24680927..24686311-chr14:24766466..24771455,6	K562	blood:
7	chr14:24682270..24687913-chr14:24764870..24771791,12	MCF-7	breast:
8	chr14:24655120..24666858-chr14:24765577..24776253,24	MCF-7	breast:
9	chr14:24767332..24771774-chr14:24910139..24913002,7	MCF-7	breast:
10	chr14:24767097..24775014-chr14:24779936..24787049,14	MCF-7	breast:
11	chr14:24766841..24768982-chr14:24770722..24773085,2	MCF-7	breast:
12	chr14:24740443..24742571-chr14:24769665..24772196,4	K562	blood:
13	chr14:24769087..24772179-chr14:24900488..24904117,5	K562	blood:
14	chr14:24768871..24772362-chr14:24798723..24803416,4	MCF-7	breast:
15	chr14:24740917..24742571-chr14:24770385..24772196,2	K562	blood:
16	chr14:24766804..24771569-chr14:24898237..24903800,5	MCF-7	breast:
17	chr14:24769018..24771644-chr14:24778129..24781269,3	K562	blood:

No data

Variant related genes	Relation type
DHRS1	TF binding region
NOP9	TF binding region
LTB4R2	TF binding region
ENSG00000100949	Chromatin interaction
ENSG00000213903	Chromatin interaction
ENSG00000129467	Chromatin interaction
ENSG00000100938	Chromatin interaction
ENSG00000254505	Chromatin interaction
ENSG00000100441	Chromatin interaction
ENSG00000139899	Chromatin interaction
ENSG00000254692	Chromatin interaction
ENSG00000260669	Chromatin interaction
ENSG00000213906	Chromatin interaction
ENSG00000100968	Chromatin interaction
ENSG00000255526	Chromatin interaction
ENSG00000129559	Chromatin interaction
ENSG00000100926	Chromatin interaction
ENSG00000259522	Chromatin interaction
ENSG00000100445	Chromatin interaction
ENSG00000136305	Chromatin interaction
ENSG00000157379	Chromatin interaction
ENSG00000272658	Chromatin interaction
ENSG00000196497	Chromatin interaction
ENSG00000213920	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10138762	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10144194	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1053648	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1053649	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12587807	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12891891	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12896458	1.00[ASW][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1950505	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2144492	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2144493	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2180197	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2281472	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2295303	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3181382	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3742510	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3742511	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4247001	1.00[ASW][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4982895	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6573678	1.00[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs941506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041336	chr14:24726564-25527319	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542000	chr14:24726564-25527319	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv901499	chr14:24765622-24787588	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	n/a
4	nsv901500	chr14:24765622-24793762	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:24770000-24771200	Genic enhancers	Fetal Lung	lung
2	chr14:24770000-24771400	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr14:24770000-24773000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:24770200-24771200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr14:24770200-24771200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr14:24770200-24771200	Strong transcription	Fetal Muscle Trunk	muscle
7	chr14:24770200-24771400	Genic enhancers	Placenta	Placenta
8	chr14:24770200-24771400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr14:24770200-24772600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr14:24770200-24773000	Weak transcription	Psoas Muscle	Psoas
11	chr14:24770200-24777000	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr14:24770200-24778600	Strong transcription	Fetal Stomach	stomach
13	chr14:24770200-24779400	Weak transcription	Right Atrium	heart
14	chr14:24770400-24771200	Weak transcription	Primary hematopoietic stem cells	blood
15	chr14:24770400-24771200	Weak transcription	Fetal Brain Male	brain
16	chr14:24770400-24771200	Genic enhancers	HepG2	liver
17	chr14:24770400-24771600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr14:24770400-24775400	Genic enhancers	Duodenum Mucosa	Duodenum
19	chr14:24770400-24775600	Genic enhancers	Liver	Liver
20	chr14:24770400-24775600	Genic enhancers	Fetal Intestine Small	intestine
21	chr14:24770400-24775800	Strong transcription	A549	lung
22	chr14:24770400-24777000	Strong transcription	Brain Cingulate Gyrus	brain
23	chr14:24770400-24778800	Weak transcription	Fetal Heart	heart
24	chr14:24770400-24782000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr14:24770600-24771200	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr14:24770600-24771600	Genic enhancers	Dnd41	blood
27	chr14:24770600-24775600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr14:24770600-24776200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr14:24770600-24776400	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr14:24770600-24776400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr14:24770600-24776400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr14:24770600-24776400	Strong transcription	Fetal Thymus	thymus
33	chr14:24770600-24776600	Strong transcription	H1 Cell Line	embryonic stem cell
34	chr14:24770600-24776600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr14:24770600-24776600	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr14:24770600-24776800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr14:24770600-24776800	Strong transcription	Brain Germinal Matrix	brain
38	chr14:24770600-24777000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr14:24770600-24777000	Strong transcription	Primary B cells from peripheral blood	blood
40	chr14:24770600-24777000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr14:24770600-24777000	Strong transcription	Ovary	ovary
42	chr14:24770600-24777000	Strong transcription	HMEC	breast
43	chr14:24770600-24777200	Strong transcription	Brain Hippocampus Middle	brain
44	chr14:24770600-24777200	Strong transcription	Fetal Muscle Leg	muscle
45	chr14:24770600-24777400	Strong transcription	Colon Smooth Muscle	Colon
46	chr14:24770600-24778000	Strong transcription	Thymus	Thymus
47	chr14:24770600-24781800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr14:24770600-24781800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr14:24770800-24771200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
50	chr14:24770800-24771200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links