Variant report

Variant	rs179733
Chromosome Location	chr14:31490642-31490643
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr14:31490123-31491112	HepG2	liver:	n/a	n/a
2	POLR2A	chr14:31489770-31491078	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
AP4S1	TF binding region

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10135412	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10138011	0.84[AMR][1000 genomes]
rs10138452	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10140025	0.94[ASN][1000 genomes]
rs10140238	0.80[ASN][1000 genomes]
rs10145545	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10147690	0.80[ASN][1000 genomes]
rs10151219	0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1033559	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10444696	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10872848	0.85[ASN][1000 genomes]
rs12019004	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12436401	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12590617	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12884687	0.85[ASN][1000 genomes]
rs17448194	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs179698	0.92[ASN][1000 genomes]
rs179699	0.92[ASN][1000 genomes]
rs179701	0.92[ASN][1000 genomes]
rs179702	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs179704	0.92[ASN][1000 genomes]
rs179705	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs179706	0.94[ASN][1000 genomes]
rs179707	0.94[ASN][1000 genomes]
rs179709	0.94[ASN][1000 genomes]
rs179710	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs179711	0.86[ASN][1000 genomes]
rs179712	0.94[ASN][1000 genomes]
rs179714	0.96[ASN][1000 genomes]
rs179717	0.94[ASN][1000 genomes]
rs179718	0.96[ASN][1000 genomes]
rs179720	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs179721	0.95[ASN][1000 genomes]
rs179722	0.94[ASN][1000 genomes]
rs179725	0.99[ASN][1000 genomes]
rs179726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs179731	0.99[ASN][1000 genomes]
rs179734	0.99[ASN][1000 genomes]
rs179736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs179737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs179743	0.92[ASN][1000 genomes]
rs179744	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1884057	0.85[ASN][1000 genomes]
rs2024662	0.90[ASN][1000 genomes]
rs2144040	0.85[ASN][1000 genomes]
rs2179934	0.85[ASN][1000 genomes]
rs2378813	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28535014	0.85[ASN][1000 genomes]
rs28648046	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3784157	0.85[ASN][1000 genomes]
rs3898581	0.85[ASN][1000 genomes]
rs4340230	0.85[ASN][1000 genomes]
rs4981811	0.85[ASN][1000 genomes]
rs4981812	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6571380	0.91[ASN][1000 genomes]
rs66463317	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67209135	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7143488	0.97[ASN][1000 genomes]
rs7149411	0.98[ASN][1000 genomes]
rs7150581	0.88[ASN][1000 genomes]
rs7150642	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7153141	0.80[ASN][1000 genomes]
rs7154042	0.85[ASN][1000 genomes]
rs7155894	0.92[ASN][1000 genomes]
rs72668364	0.84[AMR][1000 genomes]
rs72668370	0.85[AMR][1000 genomes]
rs7350754	0.85[ASN][1000 genomes]
rs8018402	0.82[ASN][1000 genomes]
rs9322869	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv564169	chr14:30819087-31541494	Strong transcription Genic enhancers ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv901581	chr14:30978745-31585289	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1035937	chr14:31447842-31579660	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv542018	chr14:31447842-31579660	Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv1048736	chr14:31447842-31624912	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv1049063	chr14:31473521-31622741	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:31442400-31494400	Weak transcription	Gastric	stomach
2	chr14:31443400-31493800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr14:31458600-31494000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr14:31461200-31492400	Weak transcription	Fetal Kidney	kidney
5	chr14:31461200-31494400	Weak transcription	Small Intestine	intestine
6	chr14:31464200-31493600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr14:31464400-31492400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr14:31465400-31492400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr14:31467800-31492000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr14:31467800-31493000	Weak transcription	HSMMtube	muscle
11	chr14:31467800-31493400	Weak transcription	Brain Angular Gyrus	brain
12	chr14:31468000-31493000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr14:31468400-31493200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr14:31468400-31493800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr14:31468800-31493200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr14:31469200-31492000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr14:31469800-31492600	Weak transcription	Fetal Brain Male	brain
18	chr14:31470000-31493200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr14:31470400-31492000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr14:31470400-31493200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr14:31470600-31493200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr14:31472800-31492800	Weak transcription	Fetal Brain Female	brain
23	chr14:31473000-31493000	Weak transcription	Brain Substantia Nigra	brain
24	chr14:31474200-31493200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr14:31475600-31492200	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr14:31476200-31493200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr14:31476200-31493200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr14:31478400-31493200	Weak transcription	Aorta	Aorta
29	chr14:31482600-31492600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr14:31482600-31493000	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr14:31482600-31493200	Weak transcription	Brain Germinal Matrix	brain
32	chr14:31482600-31494400	Weak transcription	Lung	lung
33	chr14:31484600-31491800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr14:31484600-31493200	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr14:31485400-31492200	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr14:31485600-31492800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr14:31485800-31492600	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr14:31486000-31493800	Weak transcription	Colonic Mucosa	Colon
39	chr14:31486800-31490800	Strong transcription	NHEK	skin
40	chr14:31486800-31492200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr14:31487000-31491600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr14:31487400-31491000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr14:31487400-31491000	Strong transcription	Primary B cells from cord blood	blood
44	chr14:31487400-31492000	Genic enhancers	HepG2	liver
45	chr14:31487400-31492200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr14:31487400-31492200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr14:31487600-31491200	Strong transcription	Stomach Smooth Muscle	stomach
48	chr14:31487800-31492000	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr14:31487800-31492000	Weak transcription	Brain Anterior Caudate	brain
50	chr14:31487800-31493200	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links