LOCUS       NM_001399574            3443 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus ring finger and FYVE-like domain containing E3
            ubiquitin protein ligase (Rffl), transcript variant 1, mRNA.
ACCESSION   NM_001399574 XM_006246979
VERSION     NM_001399574.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3443)
  AUTHORS   Cheng,X., Waghulde,H., Mell,B., Morgan,E.E., Pruett-Miller,S.M. and
            Joe,B.
  TITLE     Positional cloning of quantitative trait nucleotides for blood
            pressure and cardiac QT-interval by targeted CRISPR/Cas9 editing of
            a novel long non-coding RNA
  JOURNAL   PLoS Genet 13 (8), e1006961 (2017)
   PUBMED   28827789
  REMARK    GeneRIF: Targeted disruption of the rat Rffl-lnc1 locus caused
            aberrant, short QT-intervals and elevated blood pressure. Further,
            to specifically examine the significance of the 19bp polymorphism
            within the Rffl-lnc1 locus, a CRISPR/Cas9 based targeted knock-in
            rescue model was constructed by inserting the 19bp into the strain
            which contained the deletion polymorphism.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3443)
  AUTHORS   Gan,X., Wang,J., Wang,C., Sommer,E., Kozasa,T., Srinivasula,S.,
            Alessi,D., Offermanns,S., Simon,M.I. and Wu,D.
  TITLE     PRR5L degradation promotes mTORC2-mediated PKC-delta
            phosphorylation and cell migration downstream of Galpha12
  JOURNAL   Nat Cell Biol 14 (7), 686-696 (2012)
   PUBMED   22609986
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3443)
  AUTHORS   Gopalakrishnan,K., Morgan,E.E., Yerga-Woolwine,S., Farms,P.,
            Kumarasamy,S., Kalinoski,A., Liu,X., Wu,J., Liu,L. and Joe,B.
  TITLE     Augmented rififylin is a risk factor linked to aberrant
            cardiomyocyte function, short-QT interval and hypertension
  JOURNAL   Hypertension 57 (4), 764-771 (2011)
   PUBMED   21357277
  REMARK    GeneRIF: our study provides evidence to suggest that early
            perturbations in endocytic recycling caused by the overexpression
            of Rffl is a novel physiological mechanism potentially underlying
            the development of hypertension.
REFERENCE   4  (bases 1 to 3443)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   5  (bases 1 to 3443)
  AUTHORS   Liao,W., Xiao,Q., Tchikov,V., Fujita,K., Yang,W., Wincovitch,S.,
            Garfield,S., Conze,D., El-Deiry,W.S., Schutze,S. and
            Srinivasula,S.M.
  TITLE     CARP-2 is an endosome-associated ubiquitin ligase for RIP and
            regulates TNF-induced NF-kappaB activation
  JOURNAL   Curr Biol 18 (9), 641-649 (2008)
   PUBMED   18450452
REFERENCE   6  (bases 1 to 3443)
  AUTHORS   Yang,W., Dicker,D.T., Chen,J. and El-Deiry,W.S.
  TITLE     CARPs enhance p53 turnover by degrading 14-3-3sigma and stabilizing
            MDM2
  JOURNAL   Cell Cycle 7 (5), 670-682 (2008)
   PUBMED   18382127
REFERENCE   7  (bases 1 to 3443)
  AUTHORS   Yang,W., Rozan,L.M., McDonald,E.R. 3rd, Navaraj,A., Liu,J.J.,
            Matthew,E.M., Wang,W., Dicker,D.T. and El-Deiry,W.S.
  TITLE     CARPs are ubiquitin ligases that promote MDM2-independent p53 and
            phospho-p53ser20 degradation
  JOURNAL   J Biol Chem 282 (5), 3273-3281 (2007)
   PUBMED   17121812
REFERENCE   8  (bases 1 to 3443)
  AUTHORS   Coumailleau,F., Das,V., Alcover,A., Raposo,G.,
            Vandormael-Pournin,S., Le Bras,S., Baldacci,P., Dautry-Varsat,A.,
            Babinet,C. and Cohen-Tannoudji,M.
  TITLE     Over-expression of Rififylin, a new RING finger and FYVE-like
            domain-containing protein, inhibits recycling from the endocytic
            recycling compartment
  JOURNAL   Mol Biol Cell 15 (10), 4444-4456 (2004)
   PUBMED   15229288
REFERENCE   9  (bases 1 to 3443)
  AUTHORS   McDonald,E.R. 3rd and El-Deiry,W.S.
  TITLE     Suppression of caspase-8- and -10-associated RING proteins results
            in sensitization to death ligands and inhibition of tumor cell
            growth
  JOURNAL   Proc Natl Acad Sci U S A 101 (16), 6170-6175 (2004)
   PUBMED   15069192
REFERENCE   10 (bases 1 to 3443)
  AUTHORS   Araki,K., Kawamura,M., Suzuki,T., Matsuda,N., Kanbe,D., Ishii,K.,
            Ichikawa,T., Kumanishi,T., Chiba,T., Tanaka,K. and Nawa,H.
  TITLE     A palmitoylated RING finger ubiquitin ligase and its homologue in
            the brain membranes
  JOURNAL   J Neurochem 86 (3), 749-762 (2003)
   PUBMED   12859687
  REMARK    GeneRIF: identified two novel Ub ligases, Momo and Sakura, carrying
            double zinc finger motif and RING finger domain in rat brain;
            Sakura expression is more widely detected in the brain white matter
            as well as in many peripheral organs
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000010.1.
            
            On Jan 12, 2022 this sequence version replaced XM_006246979.4.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: FQ210900.1, SRR26643298.62643.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-161               JAXUCZ010000010.1  68301065-68301225   c
            162-349             JAXUCZ010000010.1  68253206-68253393   c
            350-757             JAXUCZ010000010.1  68248083-68248490   c
            758-841             JAXUCZ010000010.1  68245464-68245547   c
            842-1052            JAXUCZ010000010.1  68244442-68244652   c
            1053-1076           JAXUCZ010000010.1  68242906-68242929   c
            1077-3443           JAXUCZ010000010.1  68238273-68240639   c
FEATURES             Location/Qualifiers
     source          1..3443
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="10"
                     /map="10q26"
     gene            1..3443
                     /gene="Rffl"
                     /note="ring finger and FYVE-like domain containing E3
                     ubiquitin protein ligase"
                     /db_xref="GeneID:282844"
                     /db_xref="RGD:727916"
     exon            1..161
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     exon            162..349
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     CDS             170..1258
                     /gene="Rffl"
                     /EC_number="2.3.2.27"
                     /note="isoform 1 is encoded by transcript variant 1; E3
                     ubiquitin-protein ligase rififylin; FYVE-RING finger
                     protein Sakura; RING finger and FYVE-like
                     domain-containing protein 1; fring; RING finger protein
                     SAKURA; ring finger and FYVE like domain containing
                     protein; ring finger and FYVE-like domain containing 1;
                     RING-type E3 ubiquitin transferase rififylin"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase rififylin isoform 1"
                     /protein_id="NP_001386503.1"
                     /db_xref="GeneID:282844"
                     /db_xref="RGD:727916"
                     /translation="MWASCCNWFCLDGQPEETPPPQGARTQAYSNPGYSSFPSPTGSE
                     PSCKACGVHFASTTRKQTCLDCKKNFCMTCSSQEGNGPRLCLLCLRFRATAFQREELM
                     KMKVKDLRDYLSLHDISTEMCREKEELVFLVLGQQPVISEADRTRAPTLPQAFPEQQA
                     FLTQPQSSTVPPTSPGLPSSPAQVTSVLAQDQETQQAIGHVSQDHEEPIFLESTARVP
                     PEDETQSVDSEDSFVPGRRASLSDLTHLEDIEGLTVRQLKEILARNFVNYKGCCEKWE
                     LMERVTRLYKDQKGLQHLVSGNEDQNGGAVPSGLEENLCKICMDSPIDCVLLECGHMV
                     TCTKCGKRMNECPICRQYVIRAVHVFRS"
     exon            350..757
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     exon            758..841
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     exon            842..1052
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     exon            1053..1076
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
     exon            1077..3443
                     /gene="Rffl"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gacttcctgg ggccgcccgt aaggatgtgg tgctggcacc cgggcgcccc tcagccgcgg
       61 agttgcggcg gccgccgacc cggcagcccc gctgcctgag tggccgcagt ggggatctgg
      121 gctttgccgt cccaggtgtg gcccggcagc gtccgcggca gattttatca tgtgggcatc
      181 ctgctgcaac tggttctgct tggatggaca gcctgaggag acaccaccac cgcagggagc
      241 caggacacaa gcctattcca accctgggta cagctccttc ccttccccca caggctcgga
      301 acctagctgc aaggcctgtg gggtccattt cgcaagcacc acccggaagc agacctgctt
      361 ggactgtaag aaaaacttct gcatgacttg ctccagccaa gaggggaatg ggccacgcct
      421 ctgccttctc tgcctacgct tccgagccac ggcctttcag cgagaggagc tcatgaagat
      481 gaaggtgaag gacctgaggg actatctcag cctccatgac atctctactg aaatgtgccg
      541 ggagaaagaa gaactggtgt ttctggtgct tggccagcag cctgtaattt ctgaggcgga
      601 caggactcgt gctcccacct tgccccaggc cttccctgag cagcaggcct tcttgaccca
      661 gcctcagagc agcacagtac ctcctacctc acctggcctc ccttcttcac ctgcacaagt
      721 cacctctgtg ttagcccagg atcaggaaac tcagcaggcc attggccatg tgtctcagga
      781 ccacgaggag cccatcttcc tggagagcac agccagagta cctcctgagg atgagaccca
      841 gtccgttgac tcagaggaca gctttgtccc aggccggagg gcctcgctgt ctgacctgac
      901 ccacctggag gacattgaag gcctgaccgt gcggcagctg aaggagatcc tggctcgcaa
      961 cttcgtcaac tataagggct gctgtgagaa gtgggagctg atggagaggg tgactcggct
     1021 atacaaggat cagaaaggac tccagcacct ggtgtctggt aatgaagacc aaaacggggg
     1081 agcagtgcct tctggcctgg aggagaacct gtgtaagatt tgcatggact cacccattga
     1141 ctgtgttctg ctggagtgtg gccacatggt gacctgtacc aagtgtggca aacgcatgaa
     1201 cgagtgtccc atctgccggc agtatgtgat ccgagcagtg catgtcttcc ggtcctgagg
     1261 gctagcattg gcttcttcag tgccttacag gacatagccc aagatgtctg ggctcggggt
     1321 tggtcctatg cacaagggca gtctattgtg agaaactggc agtgttctaa gactaggaca
     1381 aaaggaggtg cctagcatgc ctgttttagg tggcagagcc caaaaccagt ggtaactggt
     1441 tcagatcaca tgggtgaatg cctgcttctg tgatctttgg gtggcgacgg taatcaatga
     1501 agaggtcttt ccggaacgtg gaccagtctt cctccgccct aagacaaatt tttcatacat
     1561 ctgtatacca ctcctcctgt tttgtcaatc agaagtcctg ctggaaatgg tatctttccc
     1621 caccccaccc ccagcacatt tggatttaaa tttatggtct ctctggcttt tcgtgtgtta
     1681 acatatcttt taagtctcat ttgcctaaaa ctcctgtttc tatggaccaa aaaaatatgt
     1741 taatcagacc aatagtattc ctcaggtcag aatttggatc agtaaactga cccctagcga
     1801 gaaattaagt cttaagtgat acagaaaaaa attctaggtt gagtcacttc tgtttagtgt
     1861 tggggttgga aaggaccagt ctctgagctg actgctggga agtccttaag agagggatct
     1921 gcttctcttt ggatttgact ttgtgtcatc cataactttg gattatgagg aaaggtaaat
     1981 tgaggcttta tctttggctt ctggtcttta ttttccagca ggctaaaact cttttaaaac
     2041 accactttaa taatattctc ctccttgggt ttaaaacttg cttactgaag gtataggaac
     2101 cttggcaaag agctctgctc tcctctagcc tggctgtccg tggagttcct ggagagcaga
     2161 cacgggacag tgttttaagg cactggaagg cgctgaatga ggctggacta tgcgtatggc
     2221 tgctgaagtc ttaactgcgt tctcttctca gctgattggg caggccagga tgaaggagtc
     2281 ttttaaatca tgattccagc cctcctgggg tctttacacc acagacacag ctgaagggtt
     2341 tgagtactgt ttgctagaac agctcaacac cacaaaacat gagctgtgtg agatgagccc
     2401 ttggcctggc taacactgcc tttcactgtg acacgagtga cacgacactg gaagagccaa
     2461 ccacgcacga ctctgggaag tggtggggca cctggggagg ctcttagaca taaatgcttg
     2521 ggcttcagga ctgaattcct tcagaggatc aagtagttcg atgaagctgt tgtcagagat
     2581 gccaggccca cttacctctg cattataagt ccagatgacc agattttggg tcaaagcttt
     2641 tgtgggtgtc agggattcag atccctccac aaagactacc ttgccttccc tccctgaaca
     2701 gtgagtactg tagtttacaa tgtctccagt ttagcacggc ccaccgattt tgctgctcct
     2761 ggactccact gtgaaacagg tctgatcttg cagctcagta agacctaaca gtaactttaa
     2821 agccagttct cccttatgac tgcttttctg aggccttacc tccctacctc ctacacagga
     2881 acagaaaata cactgatggc tgtgattagc aacccaagta acaaccagaa cccatgtcat
     2941 ttattttgga gaatttacct ttaaatctct acctttggtg ttttcatttg ggaggaaaaa
     3001 aaccaaaata tgtcaaataa cctttttatt gttaaaccaa atggaagttg gaactcattc
     3061 cagttaatat ctcaggtaga aaaactgatt ttttttttta aatacctgag cccctttttc
     3121 tgttcttcac ggatccttgg tcttaattaa tgtggaaaca cctaatcctt ccaattattc
     3181 tgtggacttt gccgattgcg ccaagatttt agttgagact tagttttcaa agatgctgac
     3241 tggttggaat agccggttct aaactaacaa gctgtaaagg aattaatagt ctatgttgta
     3301 cacatttgag atctcttgga tataaatgta tagctccaag tggcttacat tgattctctc
     3361 acctgggtgg taagcatacc caaatgtgta ttttttgtta cagagctctg ctttataatt
     3421 ttgtaataaa gtttaaatac aga
//
