Variant report

Variant	rs66756338
Chromosome Location	chr13:50590838-50590839
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:50586557..50588061-chr13:50589574..50592022,2	K562	blood:
2	chr13:50573435..50577659-chr13:50588314..50591580,3	K562	blood:
3	chr13:50569315..50571977-chr13:50588593..50590941,4	K562	blood:

Variant related genes	Relation type
ENSG00000264864	Chromatin interaction
ENSG00000204977	Chromatin interaction

Extended variants
information (count: 109 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1043208	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10492746	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1063181	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12100038	0.87[AFR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12100048	1.00[ASN][1000 genomes]
rs12583615	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583637	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583652	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583823	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12584069	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12584122	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs12585753	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12585966	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1323451	1.00[ASN][1000 genomes]
rs17073655	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17073682	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17073724	1.00[ASN][1000 genomes]
rs1807033	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2066540	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066546	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066547	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066552	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066553	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066555	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2066559	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2066562	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2066565	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2066566	1.00[ASN][1000 genomes]
rs2066586	0.81[AMR][1000 genomes]
rs2177313	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2181267	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2181268	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2407881	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407882	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41308548	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55638467	0.94[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55727821	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55869555	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57230741	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59931782	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60574696	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs60583460	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60828549	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60926548	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61960398	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs61960442	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61960445	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61960446	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61960449	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61960450	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61960451	0.84[ASN][1000 genomes]
rs61960454	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61960455	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61960457	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61961261	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61961263	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61961294	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961298	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961299	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961301	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961303	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61961304	1.00[ASN][1000 genomes]
rs61961305	1.00[ASN][1000 genomes]
rs61961306	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61961323	1.00[ASN][1000 genomes]
rs61961324	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61961325	1.00[ASN][1000 genomes]
rs61961327	1.00[ASN][1000 genomes]
rs61961328	1.00[ASN][1000 genomes]
rs6561571	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6561572	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6561575	1.00[ASN][1000 genomes]
rs6561576	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs66559968	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7140070	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7319351	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73196708	0.84[ASN][1000 genomes]
rs73196731	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73196734	1.00[ASN][1000 genomes]
rs73196744	0.95[ASN][1000 genomes]
rs7325993	0.86[ASN][1000 genomes]
rs732729	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7328892	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7334063	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7336477	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7336927	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7339181	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74078717	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs790944	1.00[ASN][1000 genomes]
rs7982125	1.00[ASN][1000 genomes]
rs7984332	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7984907	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7986364	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7986432	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7990502	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7992903	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7994224	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7995557	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7997305	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7997402	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7997638	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7998223	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7998391	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9670083	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[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	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs66756338	TRIM13	cis	Nerve Tibial	GTEx

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50573000-50594600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:50574000-50599600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr13:50574200-50591000	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr13:50577600-50594200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr13:50577600-50594400	Weak transcription	Fetal Brain Male	brain
6	chr13:50578000-50596000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr13:50578600-50604200	Strong transcription	Dnd41	blood
8	chr13:50578600-50629800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr13:50578800-50654400	Weak transcription	Esophagus	oesophagus
10	chr13:50579000-50597200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr13:50579000-50598000	Weak transcription	Pancreas	Pancrea
12	chr13:50581800-50602800	Strong transcription	Fetal Thymus	thymus
13	chr13:50582200-50603600	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr13:50582600-50591200	Strong transcription	Primary B cells from peripheral blood	blood
15	chr13:50584000-50592400	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr13:50584400-50599800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr13:50585000-50591200	Strong transcription	GM12878-XiMat	blood
18	chr13:50586800-50594600	Weak transcription	Lung	lung
19	chr13:50586800-50595600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr13:50586800-50601800	Weak transcription	Gastric	stomach
21	chr13:50586800-50654200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr13:50587000-50594200	Weak transcription	A549	lung
23	chr13:50587000-50594400	Weak transcription	Fetal Kidney	kidney
24	chr13:50587000-50594600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr13:50587000-50594600	Weak transcription	Colonic Mucosa	Colon
26	chr13:50587000-50598200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr13:50587000-50603800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr13:50587000-50633800	Weak transcription	Hela-S3	cervix
29	chr13:50587000-50645600	Weak transcription	Spleen	Spleen
30	chr13:50587200-50592000	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr13:50587200-50593000	Weak transcription	Brain Germinal Matrix	brain
32	chr13:50587200-50593000	Weak transcription	Thymus	Thymus
33	chr13:50587200-50597600	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr13:50587200-50617000	Weak transcription	HepG2	liver
35	chr13:50587400-50591800	Enhancers	Fetal Heart	heart
36	chr13:50587400-50593200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr13:50587400-50593400	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr13:50587400-50593600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr13:50587400-50597400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr13:50587400-50607600	Weak transcription	Psoas Muscle	Psoas
41	chr13:50587600-50592800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr13:50587600-50594000	Weak transcription	Placenta	Placenta
43	chr13:50587800-50591000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr13:50587800-50597400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr13:50588000-50593000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr13:50588000-50645600	Weak transcription	Ovary	ovary
47	chr13:50588200-50592800	Weak transcription	Duodenum Mucosa	Duodenum
48	chr13:50588400-50594400	Weak transcription	Primary T cells fromperipheralblood	blood
49	chr13:50588400-50594400	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr13:50588600-50591000	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links