Variant report

Variant	rs62347034
Chromosome Location	chr4:151304991-151304992
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:151299346..151301493-chr4:151304266..151307091,2	K562	blood:

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs11721723	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11723215	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11724676	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11726007	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11726346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11727758	0.84[EUR][1000 genomes]
rs11728230	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11729564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11731650	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11733079	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11734242	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11734774	0.83[AMR][1000 genomes]
rs11736470	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11736546	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11737261	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11930294	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11933088	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11934033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11936019	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11936496	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11936646	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11940101	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11946076	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11946787	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1507190	0.83[AMR][1000 genomes]
rs17504117	0.83[AMR][1000 genomes]
rs17504373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17504602	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17588916	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17588965	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2056457	0.83[AMR][1000 genomes]
rs2271043	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2292122	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35750119	0.91[AMR][1000 genomes]
rs4370117	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4696134	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4696299	0.93[AMR][1000 genomes]
rs4696320	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55770979	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55795432	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs55875525	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55889963	0.83[AMR][1000 genomes]
rs56397289	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56401050	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60557777	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62344660	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62344663	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62344694	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62344697	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62346990	0.84[AMR][1000 genomes]
rs62346996	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62347033	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62347035	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62347038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62347043	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62347044	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62348573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62348574	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62348579	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62348580	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62348581	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6817572	0.80[EUR][1000 genomes]
rs72734403	0.83[AMR][1000 genomes]
rs72734450	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72734459	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72734461	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72734468	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734475	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72734477	0.85[EUR][1000 genomes]
rs72734478	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs952098	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	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	nsv1032689	chr4:150971003-151316856	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv537300	chr4:150971003-151316856	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	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
5	nsv880259	chr4:151210761-151367745	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv880260	chr4:151214038-151331191	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	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
8	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62347034	LRBA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:151243000-151312000	Weak transcription	Primary B cells from cord blood	blood
2	chr4:151262400-151311200	Weak transcription	Primary T cells from cord blood	blood
3	chr4:151272000-151371400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:151286600-151355600	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr4:151290200-151306400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr4:151290200-151367400	Weak transcription	K562	blood
7	chr4:151291800-151314200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr4:151292400-151306800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr4:151292400-151361000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:151293600-151307200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr4:151294200-151314000	Weak transcription	Fetal Intestine Small	intestine
12	chr4:151296000-151317200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr4:151297200-151306800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr4:151297200-151314000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:151298600-151306600	Weak transcription	Colon Smooth Muscle	Colon
16	chr4:151299800-151314600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr4:151301200-151306600	Weak transcription	NH-A	brain
18	chr4:151301600-151306800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr4:151301600-151315600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr4:151302400-151307200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr4:151303200-151306600	Weak transcription	NHLF	lung
22	chr4:151303400-151305000	Weak transcription	Osteobl	bone
23	chr4:151303400-151306600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr4:151303400-151306800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:151303600-151305400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr4:151303600-151305400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr4:151303600-151305400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr4:151303600-151305600	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr4:151303600-151306400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:151303600-151306400	Weak transcription	NHDF-Ad	bronchial
31	chr4:151303600-151306600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:151303800-151305400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:151303800-151306600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr4:151304800-151305000	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr4:151304800-151306000	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr4:151304800-151307400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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