EuRBPDB

Description

RBDs

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000080345 (Gene tree)
Gene ID: 55183
Gene Symbol: RIF1
Alias: FLJ12870|FLJ10599
Full Name: replication timing regulatory factor 1
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 124,320 bases
Position: chr2:151,409,883-151,534,202
Accession: 23207
RBP type: canonical RBP
Summary: This gene encodes a protein that shares homology with the yeast teleomere binding protein, Rap1 interacting factor 1. This protein localizes to aberrant telomeres may be involved in DNA repair. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Apr 2010]

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000414615	Rif1_N	PF12231.8	7.4e-77	1	1
ENSP00000415691	Rif1_N	PF12231.8	7.4e-77	1	1
ENSP00000416123	Rif1_N	PF12231.8	7.4e-77	1	1
ENSP00000243326	Rif1_N	PF12231.8	7.5e-77	1	1
ENSP00000390181	Rif1_N	PF12231.8	7.5e-77	1	1
ENSP00000390486	Rif1_N	PF12231.8	6e-73	1	1

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
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	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
20711169	Rif1 provides a new DNA-binding interface for the Bloom syndrome complex to maintain normal replication.	EMBO J	2010 Sep 15	Xu D	doi: 10.1038/emboj.2010.186

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000484077	RIF1-210	782	-	-	- (aa)	-	-
ENST00000457745	RIF1-208	1006	-	-	- (aa)	-	-
ENST00000428287	RIF1-203	7722	-	ENSP00000415691	2446 (aa)	-	Q5UIP0
ENST00000430328	RIF1-204	7992	-	ENSP00000416123	2446 (aa)	-	Q5UIP0
ENST00000467762	RIF1-209	545	-	-	- (aa)	-	-
ENST00000414861	RIF1-202	2534	-	ENSP00000390486	845 (aa)	-	H7BZN3
ENST00000454583	RIF1-207	3552	-	ENSP00000404882	746 (aa)	-	H7C2B5
ENST00000453091	RIF1-206	8053	-	ENSP00000414615	2446 (aa)	-	Q5UIP0
ENST00000444746	RIF1-205	7897	XM_005246665	ENSP00000390181	2472 (aa)	XP_005246722	Q5UIP0
ENST00000498041	RIF1-212	776	-	-	- (aa)	-	-
ENST00000494333	RIF1-211	743	-	-	- (aa)	-	-
ENST00000243326	RIF1-201	15003	XM_011511395	ENSP00000243326	2472 (aa)	XP_011509697	Q5UIP0

Gene Model

Click here to download ENSG00000080345's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04550	Signaling pathways regulating pluripotency of stem cells	KEGG

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000080345	rs13031275	2	151489980	C	Major depression and alcohol dependence	29071344	unit increase	1.032	EFO_0003761\|EFO_0003829
ENSG00000080345	rs4491723	2	151423732	?	Age at menopause	30595370			EFO_0004704

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000080345'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
ENSG00000080345	RIF1	97	53.012	ENSAPOG00000011073	rif1	52	46.908	Acanthochromis_polyacanthus
ENSG00000080345	RIF1	97	90.024	ENSAMEG00000008461	RIF1	100	80.129	Ailuropoda_melanoleuca
ENSG00000080345	RIF1	97	55.474	ENSACIG00000017765	rif1	69	50.078	Amphilophus_citrinellus
ENSG00000080345	RIF1	97	54.061	ENSAOCG00000017231	rif1	68	47.536	Amphiprion_ocellaris
ENSG00000080345	RIF1	93	54.511	ENSAPEG00000013228	rif1	67	54.600	Amphiprion_percula
ENSG00000080345	RIF1	97	53.455	ENSATEG00000022887	rif1	68	48.196	Anabas_testudineus
ENSG00000080345	RIF1	97	69.841	ENSAPLG00000007092	RIF1	92	65.497	Anas_platyrhynchos
ENSG00000080345	RIF1	97	65.857	ENSACAG00000003714	RIF1	91	54.795	Anolis_carolinensis
ENSG00000080345	RIF1	97	95.859	ENSANAG00000024840	RIF1	100	90.619	Aotus_nancymaae
ENSG00000080345	RIF1	97	55.396	ENSAMXG00000010910	rif1	52	51.049	Astyanax_mexicanus
ENSG00000080345	RIF1	90	90.863	ENSBTAG00000021020	RIF1	99	79.029	Bos_taurus
ENSG00000080345	RIF1	97	95.128	ENSCJAG00000003138	RIF1	100	89.814	Callithrix_jacchus
ENSG00000080345	RIF1	97	88.808	ENSCAFG00000005670	RIF1	97	78.439	Canis_familiaris
ENSG00000080345	RIF1	97	88.808	ENSCAFG00020016401	RIF1	100	77.679	Canis_lupus_dingo
ENSG00000080345	RIF1	97	88.429	ENSCHIG00000020327	RIF1	100	79.210	Capra_hircus
ENSG00000080345	RIF1	97	82.826	ENSTSYG00000008861	RIF1	100	80.113	Carlito_syrichta
ENSG00000080345	RIF1	79	83.721	ENSCAPG00000008957	RIF1	96	83.721	Cavia_aperea
ENSG00000080345	RIF1	97	84.903	ENSCPOG00000037898	RIF1	99	71.360	Cavia_porcellus
ENSG00000080345	RIF1	100	89.567	ENSCCAG00000024760	RIF1	100	89.406	Cebus_capucinus
ENSG00000080345	RIF1	97	98.538	ENSCATG00000033353	RIF1	100	95.186	Cercocebus_atys
ENSG00000080345	RIF1	89	88.360	ENSCLAG00000001517	RIF1	99	74.414	Chinchilla_lanigera
ENSG00000080345	RIF1	97	98.660	ENSCSAG00000016089	RIF1	100	94.984	Chlorocebus_sabaeus
ENSG00000080345	RIF1	97	77.826	ENSCHOG00000007187	RIF1	97	77.826	Choloepus_hoffmanni
ENSG00000080345	RIF1	94	72.579	ENSCPBG00000025885	RIF1	95	72.700	Chrysemys_picta_bellii
ENSG00000080345	RIF1	97	98.173	ENSCANG00000028962	RIF1	100	94.884	Colobus_angolensis_palliatus
ENSG00000080345	RIF1	99	81.390	ENSCGRG00001024589	Rif1	100	70.269	Cricetulus_griseus_chok1gshd
ENSG00000080345	RIF1	97	86.199	ENSCGRG00000010713	Rif1	100	71.423	Cricetulus_griseus_crigri
ENSG00000080345	RIF1	97	52.009	ENSCVAG00000022479	rif1	68	48.676	Cyprinodon_variegatus
ENSG00000080345	RIF1	97	55.298	ENSDARG00000062650	rif1	51	51.081	Danio_rerio
ENSG00000080345	RIF1	97	85.401	ENSDNOG00000011194	RIF1	97	77.085	Dasypus_novemcinctus
ENSG00000080345	RIF1	94	78.212	ENSETEG00000012421	RIF1	92	72.273	Echinops_telfairi
ENSG00000080345	RIF1	97	90.378	ENSEASG00005023434	RIF1	98	91.419	Equus_asinus_asinus
ENSG00000080345	RIF1	97	90.483	ENSECAG00000012679	RIF1	100	90.483	Equus_caballus
ENSG00000080345	RIF1	97	55.218	ENSELUG00000006826	rif1	56	50.631	Esox_lucius
ENSG00000080345	RIF1	97	89.903	ENSFCAG00000029742	RIF1	100	79.396	Felis_catus
ENSG00000080345	RIF1	80	69.527	ENSFALG00000013874	RIF1	91	64.329	Ficedula_albicollis
ENSG00000080345	RIF1	97	88.078	ENSFDAG00000006538	RIF1	99	76.039	Fukomys_damarensis
ENSG00000080345	RIF1	96	53.920	ENSFHEG00000013721	rif1	65	49.960	Fundulus_heteroclitus
ENSG00000080345	RIF1	92	55.243	ENSGMOG00000003517	rif1	80	52.747	Gadus_morhua
ENSG00000080345	RIF1	82	70.833	ENSGALG00000012484	RIF1	91	64.412	Gallus_gallus
ENSG00000080345	RIF1	92	56.450	ENSGAFG00000017196	rif1	76	53.797	Gambusia_affinis
ENSG00000080345	RIF1	97	52.927	ENSGACG00000008579	rif1	66	54.800	Gasterosteus_aculeatus
ENSG00000080345	RIF1	97	71.220	ENSGAGG00000012595	RIF1	97	72.372	Gopherus_agassizii
ENSG00000080345	RIF1	99	97.852	ENSGGOG00000040178	RIF1	96	99.857	Gorilla_gorilla
ENSG00000080345	RIF1	97	54.733	ENSHBUG00000007125	rif1	73	49.850	Haplochromis_burtoni
ENSG00000080345	RIF1	97	87.470	ENSHGLG00100009807	RIF1	99	75.767	Heterocephalus_glaber_male
ENSG00000080345	RIF1	98	52.086	ENSHCOG00000015943	rif1	60	48.177	Hippocampus_comes
ENSG00000080345	RIF1	97	56.053	ENSIPUG00000021703	rif1	63	52.606	Ictalurus_punctatus
ENSG00000080345	RIF1	97	89.525	ENSSTOG00000020712	RIF1	100	77.773	Ictidomys_tridecemlineatus
ENSG00000080345	RIF1	93	84.712	ENSJJAG00000023000	Rif1	100	69.569	Jaculus_jaculus
ENSG00000080345	RIF1	97	53.228	ENSKMAG00000002852	rif1	67	49.055	Kryptolebias_marmoratus
ENSG00000080345	RIF1	97	54.501	ENSLBEG00000023196	rif1	57	55.600	Labrus_bergylta
ENSG00000080345	RIF1	94	64.617	ENSLACG00000005425	RIF1	89	63.018	Latimeria_chalumnae
ENSG00000080345	RIF1	88	61.784	ENSLOCG00000002657	rif1	82	51.613	Lepisosteus_oculatus
ENSG00000080345	RIF1	97	87.956	ENSLAFG00000009796	RIF1	100	78.235	Loxodonta_africana
ENSG00000080345	RIF1	97	98.538	ENSMFAG00000032233	RIF1	100	95.186	Macaca_fascicularis
ENSG00000080345	RIF1	97	98.538	ENSMMUG00000008611	RIF1	100	95.146	Macaca_mulatta
ENSG00000080345	RIF1	97	98.538	ENSMNEG00000031616	RIF1	100	95.065	Macaca_nemestrina
ENSG00000080345	RIF1	97	98.538	ENSMLEG00000042945	RIF1	100	95.227	Mandrillus_leucophaeus
ENSG00000080345	RIF1	97	53.333	ENSMAMG00000001745	rif1	76	49.089	Mastacembelus_armatus
ENSG00000080345	RIF1	97	54.501	ENSMZEG00005020920	rif1	72	49.585	Maylandia_zebra
ENSG00000080345	RIF1	97	69.231	ENSMGAG00000012732	RIF1	92	60.055	Meleagris_gallopavo
ENSG00000080345	RIF1	94	89.972	ENSMAUG00000013158	Rif1	99	89.972	Mesocricetus_auratus
ENSG00000080345	RIF1	97	91.971	ENSMICG00000046127	RIF1	100	84.153	Microcebus_murinus
ENSG00000080345	RIF1	99	80.048	ENSMOCG00000009381	Rif1	100	69.698	Microtus_ochrogaster
ENSG00000080345	RIF1	97	53.019	ENSMMOG00000006519	rif1	51	48.926	Mola_mola
ENSG00000080345	RIF1	97	77.251	ENSMODG00000003703	RIF1	100	59.456	Monodelphis_domestica
ENSG00000080345	RIF1	97	52.798	ENSMALG00000016759	rif1	71	49.194	Monopterus_albus
ENSG00000080345	RIF1	97	84.915	MGP_CAROLIEiJ_G0023555	Rif1	100	69.302	Mus_caroli
ENSG00000080345	RIF1	97	84.801	ENSMUSG00000036202	Rif1	100	70.040	Mus_musculus
ENSG00000080345	RIF1	97	79.927	MGP_PahariEiJ_G0025006	Rif1	100	68.092	Mus_pahari
ENSG00000080345	RIF1	97	85.158	MGP_SPRETEiJ_G0024476	Rif1	100	69.621	Mus_spretus
ENSG00000080345	RIF1	97	89.173	ENSMPUG00000000371	RIF1	100	79.380	Mustela_putorius_furo
ENSG00000080345	RIF1	99	70.651	ENSMLUG00000003376	RIF1	100	76.961	Myotis_lucifugus
ENSG00000080345	RIF1	99	84.086	ENSNGAG00000009268	Rif1	100	72.944	Nannospalax_galili
ENSG00000080345	RIF1	97	53.083	ENSNBRG00000014257	rif1	71	48.722	Neolamprologus_brichardi
ENSG00000080345	RIF1	100	95.726	ENSNLEG00000010955	RIF1	100	95.726	Nomascus_leucogenys
ENSG00000080345	RIF1	78	78.222	ENSMEUG00000007601	-	82	78.222	Notamacropus_eugenii
ENSG00000080345	RIF1	97	84.504	ENSODEG00000003950	RIF1	99	72.573	Octodon_degus
ENSG00000080345	RIF1	97	54.678	ENSONIG00000013657	rif1	60	50.420	Oreochromis_niloticus
ENSG00000080345	RIF1	97	76.220	ENSOANG00000006078	-	86	65.328	Ornithorhynchus_anatinus
ENSG00000080345	RIF1	97	87.698	ENSOCUG00000017435	RIF1	100	76.653	Oryctolagus_cuniculus
ENSG00000080345	RIF1	97	51.707	ENSORLG00020001302	rif1	69	48.524	Oryzias_latipes_hni
ENSG00000080345	RIF1	97	51.707	ENSORLG00015000009	rif1	66	48.175	Oryzias_latipes_hsok
ENSG00000080345	RIF1	97	51.986	ENSOMEG00000021513	rif1	68	48.603	Oryzias_melastigma
ENSG00000080345	RIF1	97	89.647	ENSOGAG00000006141	RIF1	99	81.290	Otolemur_garnettii
ENSG00000080345	RIF1	97	89.160	ENSOARG00000008930	RIF1	100	79.371	Ovis_aries
ENSG00000080345	RIF1	100	99.030	ENSPPAG00000023754	RIF1	100	99.030	Pan_paniscus
ENSG00000080345	RIF1	97	89.781	ENSPPRG00000003618	RIF1	100	79.445	Panthera_pardus
ENSG00000080345	RIF1	97	89.781	ENSPTIG00000020652	RIF1	100	79.485	Panthera_tigris_altaica
ENSG00000080345	RIF1	100	99.110	ENSPTRG00000012534	RIF1	100	99.110	Pan_troglodytes
ENSG00000080345	RIF1	97	98.417	ENSPANG00000008525	RIF1	100	94.862	Papio_anubis
ENSG00000080345	RIF1	96	57.335	ENSPKIG00000004267	rif1	68	51.990	Paramormyrops_kingsleyae
ENSG00000080345	RIF1	82	72.701	ENSPSIG00000012517	RIF1	98	68.200	Pelodiscus_sinensis
ENSG00000080345	RIF1	92	50.512	ENSPMGG00000016141	rif1	84	44.980	Periophthalmus_magnuspinnatus
ENSG00000080345	RIF1	97	86.081	ENSPEMG00000000446	Rif1	99	71.685	Peromyscus_maniculatus_bairdii
ENSG00000080345	RIF1	96	55.048	ENSPFOG00000017804	rif1	65	51.325	Poecilia_formosa
ENSG00000080345	RIF1	81	55.192	ENSPFOG00000000554	-	63	51.381	Poecilia_formosa
ENSG00000080345	RIF1	96	54.897	ENSPLAG00000017945	rif1	68	51.170	Poecilia_latipinna
ENSG00000080345	RIF1	72	53.376	ENSPMEG00000006897	-	62	49.755	Poecilia_mexicana
ENSG00000080345	RIF1	92	56.394	ENSPREG00000018052	rif1	65	54.133	Poecilia_reticulata
ENSG00000080345	RIF1	100	97.492	ENSPPYG00000012846	RIF1	100	97.492	Pongo_abelii
ENSG00000080345	RIF1	83	88.119	ENSPCAG00000009032	RIF1	83	88.119	Procavia_capensis
ENSG00000080345	RIF1	97	91.119	ENSPCOG00000027888	RIF1	100	84.556	Propithecus_coquereli
ENSG00000080345	RIF1	93	89.024	ENSPVAG00000014276	RIF1	95	89.024	Pteropus_vampyrus
ENSG00000080345	RIF1	97	53.155	ENSPNYG00000012940	rif1	68	49.007	Pundamilia_nyererei
ENSG00000080345	RIF1	97	56.796	ENSPNAG00000016685	rif1	64	53.548	Pygocentrus_nattereri
ENSG00000080345	RIF1	97	84.318	ENSRNOG00000054901	Rif1	100	68.408	Rattus_norvegicus
ENSG00000080345	RIF1	97	98.538	ENSRBIG00000003704	RIF1	100	94.498	Rhinopithecus_bieti
ENSG00000080345	RIF1	97	98.779	ENSRROG00000028206	RIF1	100	95.591	Rhinopithecus_roxellana
ENSG00000080345	RIF1	97	96.774	ENSSBOG00000029530	RIF1	100	96.774	Saimiri_boliviensis_boliviensis
ENSG00000080345	RIF1	97	77.129	ENSSHAG00000018552	RIF1	100	58.390	Sarcophilus_harrisii
ENSG00000080345	RIF1	96	58.852	ENSSFOG00015021539	rif1	75	53.193	Scleropages_formosus
ENSG00000080345	RIF1	96	53.199	ENSSMAG00000011704	rif1	50	48.522	Scophthalmus_maximus
ENSG00000080345	RIF1	92	56.274	ENSSDUG00000015632	rif1	72	49.394	Seriola_dumerili
ENSG00000080345	RIF1	92	56.274	ENSSLDG00000019531	rif1	53	48.159	Seriola_lalandi_dorsalis
ENSG00000080345	RIF1	85	83.051	ENSSARG00000007161	-	64	83.051	Sorex_araneus
ENSG00000080345	RIF1	96	68.719	ENSSPUG00000003062	RIF1	90	71.257	Sphenodon_punctatus
ENSG00000080345	RIF1	51	60.880	ENSSPAG00000018359	rif1	76	57.172	Stegastes_partitus
ENSG00000080345	RIF1	97	90.743	ENSSSCG00000016395	RIF1	100	79.259	Sus_scrofa
ENSG00000080345	RIF1	97	66.870	ENSTGUG00000016761	RIF1	100	67.339	Taeniopygia_guttata
ENSG00000080345	RIF1	97	54.005	ENSTRUG00000015808	rif1	70	49.325	Takifugu_rubripes
ENSG00000080345	RIF1	97	53.012	ENSTNIG00000011538	rif1	78	47.907	Tetraodon_nigroviridis
ENSG00000080345	RIF1	97	76.549	ENSTBEG00000016082	RIF1	81	87.975	Tupaia_belangeri
ENSG00000080345	RIF1	97	89.173	ENSTTRG00000011190	RIF1	100	80.346	Tursiops_truncatus
ENSG00000080345	RIF1	86	89.514	ENSUAMG00000026385	RIF1	97	89.514	Ursus_americanus
ENSG00000080345	RIF1	97	89.538	ENSUMAG00000000337	RIF1	99	88.824	Ursus_maritimus
ENSG00000080345	RIF1	97	86.861	ENSVPAG00000002162	RIF1	100	78.082	Vicugna_pacos
ENSG00000080345	RIF1	97	89.051	ENSVVUG00000011293	RIF1	100	77.791	Vulpes_vulpes
ENSG00000080345	RIF1	97	58.575	ENSXETG00000004530	rif1	71	45.355	Xenopus_tropicalis
ENSG00000080345	RIF1	89	55.423	ENSXMAG00000000506	rif1	64	48.482	Xiphophorus_maculatus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000122	negative regulation of transcription by RNA polymerase II	-	ISS	Process
GO:0000723	telomere maintenance	21873635.	IBA	Process
GO:0000723	telomere maintenance	-	ISS	Process
GO:0000781	chromosome, telomeric region	-	IEA	Component
GO:0000790	nuclear chromatin	-	ISS	Component
GO:0000793	condensed chromosome	15583028.	IDA	Component
GO:0001939	female pronucleus	-	IEA	Component
GO:0001940	male pronucleus	-	IEA	Component
GO:0005515	protein binding	22321011.23333306.27173435.28241136.28330616.29789392.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005737	cytoplasm	-	IEA	Component
GO:0005886	plasma membrane	-	IDA	Component
GO:0006303	double-strand break repair via nonhomologous end joining	-	TAS	Process
GO:0006348	chromatin silencing at telomere	-	ISS	Process
GO:0006974	cellular response to DNA damage stimulus	28241136.	IDA	Process
GO:0007049	cell cycle	-	IEA	Process
GO:0016604	nuclear body	-	IDA	Component
GO:0019827	stem cell population maintenance	-	IEA	Process
GO:0031965	nuclear membrane	-	IDA	Component
GO:0035861	site of double-strand break	28241136.	IDA	Component
GO:0043247	telomere maintenance in response to DNA damage	15583028.	IDA	Process
GO:0045830	positive regulation of isotype switching	-	ISS	Process
GO:0051233	spindle midzone	15583028.	IDA	Component
GO:0051574	positive regulation of histone H3-K9 methylation	-	ISS	Process
GO:1990830	cellular response to leukemia inhibitory factor	-	IEA	Process
GO:2000042	negative regulation of double-strand break repair via homologous recombination	23333306.	IDA	Process
GO:2001034	positive regulation of double-strand break repair via nonhomologous end joining	28241136.	IDA	Process