Variant report

Variant	rs11929289
Chromosome Location	chr3:105480833-105480834
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1042852	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10446294	0.82[AMR][1000 genomes]
rs10490830	0.84[ASN][1000 genomes]
rs11706886	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11713094	0.83[AMR][1000 genomes]
rs11915926	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12493181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12493560	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs12695122	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs12695123	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13059405	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13061160	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13062734	0.92[ASN][1000 genomes]
rs13064310	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs13065142	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13082334	0.84[ASN][1000 genomes]
rs13083716	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13084260	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13093260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13315174	0.83[AMR][1000 genomes]
rs13317635	0.83[AMR][1000 genomes]
rs1443105	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1443106	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1443108	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1530420	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1545304	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17202230	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17202348	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1867189	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1867190	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2083758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2083761	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2120585	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2244737	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2284993	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2301029	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2301030	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2301032	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2301037	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2301040	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2301041	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2301043	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2301050	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2301051	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2305035	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2305036	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2305037	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2399054	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2399055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28532512	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34520191	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34896116	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35748894	0.83[AMR][1000 genomes]
rs35834008	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3772513	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3772521	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772526	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3772527	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3772531	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3772537	0.80[AMR][1000 genomes]
rs3821488	0.83[AMR][1000 genomes]
rs4321559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4627779	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6437611	0.81[AMR][1000 genomes]
rs6437614	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6773661	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6796643	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726444	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7615317	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7619647	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7624530	0.83[AMR][1000 genomes]
rs7646445	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7649520	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7652702	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs894937	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9288815	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs9657914	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9657915	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9816486	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9840891	0.80[AMR][1000 genomes]
rs9860539	0.83[AMR][1000 genomes]
rs9870097	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9872897	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9873552	0.80[AMR][1000 genomes]
rs9876767	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9877805	0.83[AMR][1000 genomes]
rs9878058	0.83[AMR][1000 genomes]
rs9880861	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9883858	0.80[AMR][1000 genomes]
rs999046	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877306	chr3:105372196-105495841	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv877308	chr3:105373836-105495841	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv877310	chr3:105409321-105495841	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv591244	chr3:105438320-105495841	ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv591246	chr3:105439522-105504129	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv877311	chr3:105449986-105493286	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11929289	CBLB	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105464800-105482600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:105465800-105483400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:105466000-105481200	Weak transcription	Fetal Kidney	kidney
4	chr3:105466600-105481400	Weak transcription	HepG2	liver
5	chr3:105467600-105509400	Weak transcription	Stomach Mucosa	stomach
6	chr3:105472200-105499000	Weak transcription	NHDF-Ad	bronchial
7	chr3:105472400-105504400	Weak transcription	HUVEC	blood vessel
8	chr3:105473000-105481400	Weak transcription	NH-A	brain
9	chr3:105474600-105483200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr3:105475200-105483000	Strong transcription	Osteobl	bone
11	chr3:105475200-105485600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:105475800-105483000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:105476000-105486600	Weak transcription	Psoas Muscle	Psoas
14	chr3:105477000-105481200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:105477600-105482800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr3:105477800-105486800	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:105478000-105481200	Weak transcription	Brain Substantia Nigra	brain
18	chr3:105478200-105495400	Weak transcription	HSMMtube	muscle
19	chr3:105478400-105481000	Weak transcription	Adipose Nuclei	Adipose
20	chr3:105478400-105481200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr3:105478400-105481200	Weak transcription	Colonic Mucosa	Colon
22	chr3:105478400-105481200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:105478600-105481000	Weak transcription	Liver	Liver
24	chr3:105478600-105481200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:105478600-105481400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr3:105478600-105481400	Weak transcription	Gastric	stomach
27	chr3:105478600-105486600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr3:105478600-105509400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr3:105478600-105511200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr3:105478800-105481000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:105478800-105481000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr3:105478800-105481000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr3:105478800-105481000	Weak transcription	Placenta	Placenta
34	chr3:105478800-105481000	Weak transcription	Fetal Stomach	stomach
35	chr3:105478800-105481000	Weak transcription	HSMM	muscle
36	chr3:105478800-105481200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:105478800-105481200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr3:105478800-105481200	Weak transcription	Aorta	Aorta
39	chr3:105478800-105481200	Weak transcription	Fetal Thymus	thymus
40	chr3:105478800-105481200	Weak transcription	Left Ventricle	heart
41	chr3:105478800-105481200	Weak transcription	Lung	lung
42	chr3:105478800-105481200	Weak transcription	Thymus	Thymus
43	chr3:105478800-105481200	Weak transcription	Spleen	Spleen
44	chr3:105478800-105481400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr3:105478800-105482600	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr3:105478800-105483400	Weak transcription	Right Ventricle	heart
47	chr3:105478800-105489200	Weak transcription	Right Atrium	heart
48	chr3:105478800-105496200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr3:105479000-105482600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr3:105479400-105482400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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