RTL4_MOUSE
ID RTL4_MOUSE Reviewed; 304 AA.
AC Q3URY0; A2AMQ0; B2RSQ2; Q3UVU7;
DT 31-OCT-2006, integrated into UniProtKB/Swiss-Prot.
DT 11-OCT-2005, sequence version 1.
DT 03-AUG-2022, entry version 112.
DE RecName: Full=Retrotransposon Gag-like protein 4 {ECO:0000250|UniProtKB:Q6ZR62};
DE AltName: Full=Mammalian retrotransposon-derived protein 4 {ECO:0000303|PubMed:15716091};
DE AltName: Full=Sushi-XF2b protein;
DE AltName: Full=Sushi-ichi-related retrotransposon homolog 11 {ECO:0000303|PubMed:26402067};
DE AltName: Full=Zinc finger CCHC domain-containing protein 16 {ECO:0000303|PubMed:26402067};
GN Name=Rtl4 {ECO:0000250|UniProtKB:Q6ZR62};
GN Synonyms=Mar4, Mart4 {ECO:0000303|PubMed:15716091},
GN Sirh11 {ECO:0000303|PubMed:26402067},
GN Zcchc16 {ECO:0000303|PubMed:26402067};
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=C57BL/6J; TISSUE=Cerebellum;
RX PubMed=16141072; DOI=10.1126/science.1112014;
RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=C57BL/6J;
RX PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
RA Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X.,
RA Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y.,
RA Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S.,
RA Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R.,
RA Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K.,
RA Eichler E.E., Ponting C.P.;
RT "Lineage-specific biology revealed by a finished genome assembly of the
RT mouse.";
RL PLoS Biol. 7:E1000112-E1000112(2009).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC TISSUE=Brain;
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [4]
RP GENE FAMILY.
RX PubMed=16093683; DOI=10.1159/000084963;
RA Brandt J., Veith A.-M., Volff J.-N.;
RT "A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian
RT genomes.";
RL Cytogenet. Genome Res. 110:307-317(2005).
RN [5]
RP IDENTIFICATION.
RX PubMed=16155747; DOI=10.1007/s00239-004-0332-0;
RA Youngson N.A., Kocialkowski S., Peel N., Ferguson-Smith A.C.;
RT "A small family of sushi-class retrotransposon-derived genes in mammals and
RT their relation to genomic imprinting.";
RL J. Mol. Evol. 61:481-490(2005).
RN [6]
RP TISSUE SPECIFICITY, AND DEVELOPMENTAL STAGE.
RX PubMed=15716091; DOI=10.1016/j.gene.2004.11.022;
RA Brandt J., Schrauth S., Veith A.-M., Froschauer A., Haneke T.,
RA Schultheis C., Gessler M., Leimeister C., Volff J.-N.;
RT "Transposable elements as a source of genetic innovation: expression and
RT evolution of a family of retrotransposon-derived neogenes in mammals.";
RL Gene 345:101-111(2005).
RN [7]
RP FUNCTION, DISRUPTION PHENOTYPE, TISSUE SPECIFICITY, AND DEVELOPMENTAL
RP STAGE.
RX PubMed=26402067; DOI=10.1371/journal.pgen.1005521;
RA Irie M., Yoshikawa M., Ono R., Iwafune H., Furuse T., Yamada I., Wakana S.,
RA Yamashita Y., Abe T., Ishino F., Kaneko-Ishino T.;
RT "Cognitive Function Related to the Sirh11/Zcchc16 Gene Acquired from an LTR
RT Retrotransposon in Eutherians.";
RL PLoS Genet. 11:E1005521-E1005521(2015).
CC -!- FUNCTION: Involved in cognitive function in the brain, possibly via the
CC noradrenergic system. {ECO:0000269|PubMed:26402067}.
CC -!- TISSUE SPECIFICITY: In adults, expressed in brain, eye, kidney, ovary
CC and testis (PubMed:26402067, PubMed:15716091). Weakly expressed in
CC thymus, heart and muscle (PubMed:15716091).
CC {ECO:0000269|PubMed:15716091, ECO:0000269|PubMed:26402067}.
CC -!- DEVELOPMENTAL STAGE: Expressed at 12.5 dpc in almost all tissues
CC tested. Expressed at 14.5 dpc in brain, eye and liver. Weakly expressed
CC in lung, heart and kidney. {ECO:0000269|PubMed:15716091,
CC ECO:0000269|PubMed:26402067}.
CC -!- DISRUPTION PHENOTYPE: Mutants are viable and don't show growth
CC retardation in the pre- and postnatal periods in either female or male
CC mice (PubMed:26402067). Animals are fertile, even in the case of mating
CC between mutants. They exhibit abnormal behaviors related to cognition,
CC including attention, impulsivity, and working memory (PubMed:26402067).
CC Animals show a reduced recovery rate of noradrenaline in the prefrontal
CC cortex region (PubMed:26402067). {ECO:0000269|PubMed:26402067}.
CC -!- MISCELLANEOUS: RTL4 is one of at least 11 genes called Mar or Mart
CC related to long terminal repeat retrotransposons. They do not
CC correspond to functional retrotransposons, but rather to
CC neofunctionalized retrotransposons genes. {ECO:0000269|PubMed:15716091,
CC ECO:0000269|PubMed:16093683}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAE23172.1; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; AK136928; BAE23172.1; ALT_FRAME; mRNA.
DR EMBL; AK141066; BAE24557.1; -; mRNA.
DR EMBL; AL807791; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC138958; AAI38959.1; -; mRNA.
DR EMBL; BC138959; AAI38960.1; -; mRNA.
DR EMBL; BN000783; CAI99163.1; -; Genomic_DNA.
DR CCDS; CCDS41158.1; -.
DR RefSeq; NP_001028967.2; NM_001033795.4.
DR RefSeq; XP_006529015.1; XM_006528952.2.
DR RefSeq; XP_011246164.1; XM_011247862.1.
DR RefSeq; XP_011246166.1; XM_011247864.1.
DR RefSeq; XP_011246167.1; XM_011247865.1.
DR RefSeq; XP_011246168.1; XM_011247866.1.
DR RefSeq; XP_011246169.1; XM_011247867.1.
DR AlphaFoldDB; Q3URY0; -.
DR STRING; 10090.ENSMUSP00000108462; -.
DR iPTMnet; Q3URY0; -.
DR PhosphoSitePlus; Q3URY0; -.
DR PaxDb; Q3URY0; -.
DR PRIDE; Q3URY0; -.
DR Antibodypedia; 569; 13 antibodies from 8 providers.
DR Ensembl; ENSMUST00000096301; ENSMUSP00000108463; ENSMUSG00000071679.
DR Ensembl; ENSMUST00000112843; ENSMUSP00000108462; ENSMUSG00000071679.
DR GeneID; 619287; -.
DR KEGG; mmu:619287; -.
DR UCSC; uc009umy.2; mouse.
DR CTD; 340595; -.
DR MGI; MGI:3588192; Rtl4.
DR VEuPathDB; HostDB:ENSMUSG00000071679; -.
DR eggNOG; ENOG502T727; Eukaryota.
DR GeneTree; ENSGT00940000163925; -.
DR HOGENOM; CLU_000384_20_1_1; -.
DR InParanoid; Q3URY0; -.
DR OMA; ETQLCLY; -.
DR OrthoDB; 583605at2759; -.
DR PhylomeDB; Q3URY0; -.
DR TreeFam; TF335133; -.
DR BioGRID-ORCS; 619287; 1 hit in 74 CRISPR screens.
DR ChiTaRS; Rtl4; mouse.
DR PRO; PR:Q3URY0; -.
DR Proteomes; UP000000589; Chromosome X.
DR RNAct; Q3URY0; protein.
DR Bgee; ENSMUSG00000071679; Expressed in adrenal gland and 23 other tissues.
DR GO; GO:0003676; F:nucleic acid binding; IEA:InterPro.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0050890; P:cognition; IMP:MGI.
DR GO; GO:0042415; P:norepinephrine metabolic process; IMP:MGI.
DR InterPro; IPR032567; LDOC1-rel.
DR InterPro; IPR001878; Znf_CCHC.
DR InterPro; IPR036875; Znf_CCHC_sf.
DR PANTHER; PTHR15503; PTHR15503; 1.
DR SUPFAM; SSF57756; SSF57756; 1.
DR PROSITE; PS50158; ZF_CCHC; 1.
PE 2: Evidence at transcript level;
KW Metal-binding; Reference proteome; Zinc; Zinc-finger.
FT CHAIN 1..304
FT /note="Retrotransposon Gag-like protein 4"
FT /id="PRO_0000257495"
FT ZN_FING 276..293
FT /note="CCHC-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00047"
FT CONFLICT 62
FT /note="P -> R (in Ref. 1; BAE23172)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 304 AA; 34266 MW; F65A8D5D50FEFC79 CRC64;
MEKCTESLPN LNAETSFLRG GNLILQPQVQ HPTDDKPPIT GQVVPALNTP VMSGPYSGDH
IPQFHGNPAS VKGFFAQVTT YLRALDISNP ADNARVKHFF DYLSQQMQNC DVLSESTQNN
LLKQYENFVL ELQQSFGEPM TQETTPPMNV TVDKSNISPQ DATNFQLHAP NLSYRETNQR
DQFQNGQADP TQNEEITDIM DNLPDLITQC IQLDKKHKDR PELLQSESHV PMFASTNHYQ
SFIGPVRPLP KDGPRQLQGA HLPVTPAKRA RQQETQLCVY CNQAGHFTRD CLAKRSRTPA
RKKM
