EuRBPDB

Description

RBDs

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000109534 (Gene tree)
Gene ID: 54433
Gene Symbol: GAR1
Alias: NOLA1
Full Name: GAR1 ribonucleoprotein
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 9,231 bases
Position: chr4:109,815,510-109,824,740
Accession: 14264
RBP type: canonical RBP
Summary: This gene is a member of the H/ACA snoRNPs (small nucleolar ribonucleoproteins) gene family. snoRNPs are involved in various aspects of rRNA processing and modification and have been classified into two families: C/D and H/ACA. The H/ACA snoRNPs also include the DKC1, NOLA2 and NOLA3 proteins. These four H/ACA snoRNP proteins localize to the dense fibrillar components of nucleoli and to coiled (Cajal) bodies in the nucleus. Both 18S rRNA production and rRNA pseudouridylation are impaired if any one of the four proteins is depleted. These four H/ACA snoRNP proteins are also components of the telomerase complex. The encoded protein of this gene contains two glycine- and arginine-rich domains and is related to Saccharomyces cerevisiae Gar1p. Two splice variants have been found for this gene. [provided by RefSeq, Jul 2008]

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000226796	Gar1	PF04410.14	3.5e-38	1	1
ENSP00000378127	Gar1	PF04410.14	3.5e-38	1	1

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22681889	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts	4SURIC & HEK293	2012 May	Baltz AG	DOI: 10.1016/j.molcel.2012.05.021
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
29431736	Capturing the interactome of newly transcribed RNA	RIC & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30352994	Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture	RIC & Jurkat	2018 Oct 23	Perez-Perri JI	DOI:10.1038/s41467-018-06557-8

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
23334891	Interactome analysis reveals versatile functions of Arabidopsis COLD SHOCK DOMAIN PROTEIN 3 in RNA processing within the nucleus and cytoplasm.	Cell Stress Chaperones	2013 Jul	Kim MH	doi: 10.1007/s12192-012-0398-3
22117216	Structure of the Shq1-Cbf5-Nop10-Gar1 complex and implications for H/ACA RNP biogenesis and dyskeratosis congenita.	EMBO J	2011 Nov 25	Li S	doi: 10.1038/emboj.2011.427.

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000503671	GAR1-203	1146	-	-	- (aa)	-	-
ENST00000226796	GAR1-201	1224	-	ENSP00000226796	217 (aa)	-	Q9NY12
ENST00000394631	GAR1-202	1011	-	ENSP00000378127	217 (aa)	-	Q9NY12
ENST00000506840	GAR1-204	831	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000109534's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03008	Ribosome biogenesis in eukaryotes	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000109534's network

* RBP PPI network refers to all genes directly bind to RBP

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000109534	GAR1	50	98.165	ENSAMEG00000004605	GAR1	53	98.165	Ailuropoda_melanoleuca
ENSG00000109534	GAR1	100	99.083	ENSANAG00000021608	GAR1	100	99.083	Aotus_nancymaae
ENSG00000109534	GAR1	50	99.083	ENSBTAG00000000748	GAR1	52	99.083	Bos_taurus
ENSG00000109534	GAR1	100	98.624	ENSCJAG00000004041	GAR1	100	98.624	Callithrix_jacchus
ENSG00000109534	GAR1	51	99.091	ENSCHIG00000016026	-	52	99.083	Capra_hircus
ENSG00000109534	GAR1	100	95.413	ENSTSYG00000013668	-	51	100.000	Carlito_syrichta
ENSG00000109534	GAR1	50	91.743	ENSTSYG00000026632	-	56	91.743	Carlito_syrichta
ENSG00000109534	GAR1	51	99.091	ENSCPOG00000004216	GAR1	50	99.083	Cavia_porcellus
ENSG00000109534	GAR1	100	99.083	ENSCCAG00000029372	GAR1	100	99.083	Cebus_capucinus
ENSG00000109534	GAR1	100	99.539	ENSCATG00000021854	GAR1	100	99.539	Cercocebus_atys
ENSG00000109534	GAR1	51	97.273	ENSCLAG00000005335	GAR1	99	94.937	Chinchilla_lanigera
ENSG00000109534	GAR1	90	97.949	ENSCSAG00000003922	GAR1	98	97.949	Chlorocebus_sabaeus
ENSG00000109534	GAR1	53	99.138	ENSCHOG00000007484	-	51	99.138	Choloepus_hoffmanni
ENSG00000109534	GAR1	100	98.618	ENSCANG00000039262	GAR1	100	98.618	Colobus_angolensis_palliatus
ENSG00000109534	GAR1	50	99.083	ENSDNOG00000037632	GAR1	55	99.083	Dasypus_novemcinctus
ENSG00000109534	GAR1	66	92.361	ENSDORG00000000482	Gar1	50	96.330	Dipodomys_ordii
ENSG00000109534	GAR1	51	98.182	ENSEASG00005004658	GAR1	50	98.165	Equus_asinus_asinus
ENSG00000109534	GAR1	51	99.091	ENSECAG00000013624	GAR1	55	99.083	Equus_caballus
ENSG00000109534	GAR1	50	99.083	ENSFCAG00000040791	-	52	99.083	Felis_catus
ENSG00000109534	GAR1	59	60.000	ENSFCAG00000025841	-	57	63.866	Felis_catus
ENSG00000109534	GAR1	51	91.892	ENSFHEG00000008068	gar1	50	93.458	Fundulus_heteroclitus
ENSG00000109534	GAR1	51	80.180	ENSGGOG00000036205	-	54	80.734	Gorilla_gorilla
ENSG00000109534	GAR1	100	99.539	ENSGGOG00000008681	GAR1	100	99.539	Gorilla_gorilla
ENSG00000109534	GAR1	62	84.444	ENSIPUG00000003194	gar1	51	91.589	Ictalurus_punctatus
ENSG00000109534	GAR1	50	97.248	ENSSTOG00000005577	GAR1	71	96.364	Ictidomys_tridecemlineatus
ENSG00000109534	GAR1	51	89.189	ENSKMAG00000010402	gar1	51	91.589	Kryptolebias_marmoratus
ENSG00000109534	GAR1	79	84.298	ENSLACG00000003306	GAR1	65	87.037	Latimeria_chalumnae
ENSG00000109534	GAR1	100	99.539	ENSMFAG00000024592	GAR1	100	99.539	Macaca_fascicularis
ENSG00000109534	GAR1	50	84.259	ENSMFAG00000003572	-	53	83.486	Macaca_fascicularis
ENSG00000109534	GAR1	100	99.539	ENSMMUG00000021225	GAR1	100	99.539	Macaca_mulatta
ENSG00000109534	GAR1	100	99.539	ENSMNEG00000042594	GAR1	100	99.539	Macaca_nemestrina
ENSG00000109534	GAR1	99	99.070	ENSMLEG00000002496	GAR1	99	99.070	Mandrillus_leucophaeus
ENSG00000109534	GAR1	59	87.402	ENSMAUG00000016788	Gar1	70	98.182	Mesocricetus_auratus
ENSG00000109534	GAR1	52	98.214	ENSMICG00000003326	GAR1	50	99.083	Microcebus_murinus
ENSG00000109534	GAR1	50	95.413	ENSMOCG00000001340	Gar1	70	100.000	Microtus_ochrogaster
ENSG00000109534	GAR1	69	75.168	ENSMALG00000009672	gar1	52	92.035	Monopterus_albus
ENSG00000109534	GAR1	50	96.330	MGP_CAROLIEiJ_G0025627	Gar1	70	100.000	Mus_caroli
ENSG00000109534	GAR1	51	96.364	ENSMUSG00000028010	Gar1	70	100.000	Mus_musculus
ENSG00000109534	GAR1	88	93.264	MGP_PahariEiJ_G0027076	Gar1	100	95.213	Mus_pahari
ENSG00000109534	GAR1	51	96.364	MGP_SPRETEiJ_G0026580	Gar1	70	100.000	Mus_spretus
ENSG00000109534	GAR1	100	92.727	ENSMPUG00000008615	GAR1	52	99.083	Mustela_putorius_furo
ENSG00000109534	GAR1	100	94.196	ENSMLUG00000003776	GAR1	100	94.196	Myotis_lucifugus
ENSG00000109534	GAR1	51	98.182	ENSNGAG00000008268	Gar1	92	98.592	Nannospalax_galili
ENSG00000109534	GAR1	100	98.157	ENSNLEG00000016578	GAR1	100	98.157	Nomascus_leucogenys
ENSG00000109534	GAR1	51	83.784	ENSNLEG00000034282	-	55	83.486	Nomascus_leucogenys
ENSG00000109534	GAR1	50	99.083	ENSOCUG00000003901	GAR1	51	99.083	Oryctolagus_cuniculus
ENSG00000109534	GAR1	100	95.434	ENSOGAG00000004693	GAR1	51	99.083	Otolemur_garnettii
ENSG00000109534	GAR1	50	99.083	ENSOARG00000004910	GAR1	52	99.083	Ovis_aries
ENSG00000109534	GAR1	100	99.541	ENSPPAG00000014081	GAR1	100	99.541	Pan_paniscus
ENSG00000109534	GAR1	100	92.727	ENSPPRG00000023697	GAR1	52	99.083	Panthera_pardus
ENSG00000109534	GAR1	100	92.727	ENSPTIG00000021565	GAR1	52	99.083	Panthera_tigris_altaica
ENSG00000109534	GAR1	100	99.539	ENSPTRG00000016364	GAR1	100	99.539	Pan_troglodytes
ENSG00000109534	GAR1	77	66.071	ENSPTRG00000049340	-	66	73.913	Pan_troglodytes
ENSG00000109534	GAR1	100	99.539	ENSPANG00000000639	GAR1	100	99.539	Papio_anubis
ENSG00000109534	GAR1	77	74.251	ENSPKIG00000018991	gar1	65	86.111	Paramormyrops_kingsleyae
ENSG00000109534	GAR1	50	96.330	ENSPEMG00000015838	Gar1	70	98.182	Peromyscus_maniculatus_bairdii
ENSG00000109534	GAR1	50	92.593	ENSPCIG00000018912	GAR1	52	87.805	Phascolarctos_cinereus
ENSG00000109534	GAR1	100	99.539	ENSPPYG00000014996	GAR1	100	99.539	Pongo_abelii
ENSG00000109534	GAR1	78	96.491	ENSRNOG00000061146	Gar1	100	96.491	Rattus_norvegicus
ENSG00000109534	GAR1	100	99.078	ENSRBIG00000019547	GAR1	100	99.078	Rhinopithecus_bieti
ENSG00000109534	GAR1	52	82.143	ENSRBIG00000042411	-	53	81.651	Rhinopithecus_bieti
ENSG00000109534	GAR1	52	82.143	ENSRROG00000044348	-	52	81.651	Rhinopithecus_roxellana
ENSG00000109534	GAR1	100	99.539	ENSRROG00000028454	GAR1	100	99.539	Rhinopithecus_roxellana
ENSG00000109534	GAR1	100	95.909	ENSSBOG00000024785	GAR1	100	95.909	Saimiri_boliviensis_boliviensis
ENSG00000109534	GAR1	77	88.690	ENSSSCG00000009137	GAR1	54	99.083	Sus_scrofa
ENSG00000109534	GAR1	86	93.122	ENSUAMG00000005652	GAR1	94	93.122	Ursus_americanus
ENSG00000109534	GAR1	100	91.818	ENSUMAG00000000776	GAR1	100	91.818	Ursus_maritimus
ENSG00000109534	GAR1	50	99.083	ENSVVUG00000017612	GAR1	56	99.083	Vulpes_vulpes

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000454	snoRNA guided rRNA pseudouridine synthesis	21873635.	IBA	Process
GO:0000784	nuclear chromosome, telomeric region	19135898.	HDA	Component
GO:0000784	nuclear chromosome, telomeric region	24270157.	IDA	Component
GO:0001650	fibrillar center	-	IDA	Component
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0003723	RNA binding	10757788.18082603.20351177.	IPI	Function
GO:0005515	protein binding	23685356.	IPI	Function
GO:0005634	nucleus	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005697	telomerase holoenzyme complex	29695869.	IDA	Component
GO:0005697	telomerase holoenzyme complex	22527283.	TAS	Component
GO:0007004	telomere maintenance via telomerase	29695869.	IDA	Process
GO:0007004	telomere maintenance via telomerase	22527283.	TAS	Process
GO:0031118	rRNA pseudouridine synthesis	-	TAS	Process
GO:0031429	box H/ACA snoRNP complex	21873635.	IBA	Component
GO:0031429	box H/ACA snoRNP complex	10757788.	IDA	Component
GO:0031429	box H/ACA snoRNP complex	22527283.	TAS	Component
GO:0034513	box H/ACA snoRNA binding	21873635.	IBA	Function
GO:0034513	box H/ACA snoRNA binding	10757788.	IPI	Function
GO:0070034	telomerase RNA binding	10757788.18082603.20351177.	IPI	Function
GO:0072589	box H/ACA scaRNP complex	22527283.	TAS	Component
GO:0090661	box H/ACA telomerase RNP complex	10757788.	IDA	Component
GO:0090661	box H/ACA telomerase RNP complex	22527283.	TAS	Component