Variant report

Variant	rs62344666
Chromosome Location	chr4:151384171-151384172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:151374833..151377803-chr4:151382991..151384523,2	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11733926	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11940776	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11946839	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17504366	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1910724	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56984259	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60249323	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62344695	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62344738	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62347036	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6854764	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72734466	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72734480	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7673944	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7682907	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7688842	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[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	nsv932022	chr4:150831733-151419552	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv880256	chr4:151126725-151751369	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv817540	chr4:151228965-151858609	Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv830112	chr4:151243801-151431771	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv869051	chr4:151347901-151737781	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1024820	chr4:151364078-151943561	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62344666	LRBA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:151333000-151408000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:151344800-151387200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:151345000-151389000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:151356200-151386800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr4:151356600-151411200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr4:151356800-151391200	Weak transcription	Fetal Intestine Large	intestine
7	chr4:151358400-151398600	Weak transcription	GM12878-XiMat	blood
8	chr4:151364600-151387400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:151364600-151414800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr4:151372200-151402200	Weak transcription	Fetal Intestine Small	intestine
11	chr4:151373600-151398000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr4:151374400-151419000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr4:151376000-151387800	Weak transcription	Brain Angular Gyrus	brain
14	chr4:151376200-151409600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr4:151376800-151403800	Weak transcription	Ovary	ovary
16	chr4:151377000-151403400	Weak transcription	Aorta	Aorta
17	chr4:151377000-151412400	Weak transcription	Liver	Liver
18	chr4:151377600-151387000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr4:151377600-151387200	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr4:151377600-151400000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr4:151377800-151387200	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr4:151378000-151386000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr4:151378000-151386200	Weak transcription	Primary T cells from cord blood	blood
24	chr4:151378000-151387600	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr4:151378000-151398200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:151378200-151385800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr4:151378200-151386600	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr4:151378200-151387200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr4:151379400-151387200	Weak transcription	Primary B cells from peripheral blood	blood
30	chr4:151380000-151409600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr4:151381200-151408200	Weak transcription	Left Ventricle	heart
32	chr4:151381400-151411400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr4:151382400-151422400	Weak transcription	Adipose Nuclei	Adipose
34	chr4:151382600-151384200	Weak transcription	Colon Smooth Muscle	Colon
35	chr4:151382800-151398000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:151383000-151386600	Weak transcription	Primary B cells from cord blood	blood
37	chr4:151383600-151384200	Enhancers	A549	lung
38	chr4:151383600-151385800	Enhancers	Muscle Satellite Cultured Cells	--
39	chr4:151383800-151384400	Enhancers	Fetal Lung	lung
40	chr4:151383800-151384400	Enhancers	Hela-S3	cervix
41	chr4:151383800-151384400	Enhancers	HUVEC	blood vessel
42	chr4:151383800-151384800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr4:151384000-151384600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr4:151384000-151384600	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links