LOCUS       NM_001419136            5429 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus PHD and ring finger domains 1 (Phrf1), transcript
            variant 4, mRNA.
ACCESSION   NM_001419136 XM_006536140
VERSION     NM_001419136.1
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 5429)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 5429)
  AUTHORS   Lee,J.Y., Chou,N.L., Yu,Y.R., Shih,H.A., Lin,H.W., Lee,C.K. and
            Chang,M.S.
  TITLE     PHRF1 promotes the class switch recombination of IgA in CH12F3-2A
            cells
  JOURNAL   PLoS One 18 (8), e0285159 (2023)
   PUBMED   37540725
  REMARK    GeneRIF: PHRF1 promotes the class switch recombination of IgA in
            CH12F3-2A cells.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 5429)
  AUTHORS   Shih,T.W., Lee,L.J., Chang,H.C., Lin,H.W. and Chang,M.S.
  TITLE     An important role of PHRF1 in dendritic architecture and memory
            formation by modulating TGF-beta signaling
  JOURNAL   Sci Rep 10 (1), 10857 (2020)
   PUBMED   32616804
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 5429)
  AUTHORS   Masuda,T., Kai,N., Sakuma,C., Kobayashi,K., Koga,H. and Yaginuma,H.
  TITLE     Laser capture microdissection and cDNA array analysis for
            identification of mouse KIAA/FLJ genes differentially expressed in
            the embryonic dorsal spinal cord
  JOURNAL   Brain Res 1249, 61-67 (2009)
   PUBMED   19026994
REFERENCE   5  (bases 1 to 5429)
  AUTHORS   Cobellis,G., Nicolaus,G., Iovino,M., Romito,A., Marra,E.,
            Barbarisi,M., Sardiello,M., Di Giorgio,F.P., Iovino,N., Zollo,M.,
            Ballabio,A. and Cortese,R.
  TITLE     Tagging genes with cassette-exchange sites
  JOURNAL   Nucleic Acids Res 33 (4), e44 (2005)
   PUBMED   15741177
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 5429)
  AUTHORS   Blackshaw,S., Harpavat,S., Trimarchi,J., Cai,L., Huang,H.,
            Kuo,W.P., Weber,G., Lee,K., Fraioli,R.E., Cho,S.H., Yung,R.,
            Asch,E., Ohno-Machado,L., Wong,W.H. and Cepko,C.L.
  TITLE     Genomic analysis of mouse retinal development
  JOURNAL   PLoS Biol 2 (9), E247 (2004)
   PUBMED   15226823
REFERENCE   7  (bases 1 to 5429)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Koseki,H., Hiraoka,S.,
            Saga,Y., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: III. the complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (4), 167-180 (2003)
   PUBMED   14621295
REFERENCE   8  (bases 1 to 5429)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC108908.16 and AC163434.5.
            
            On Mar 28, 2023 this sequence version replaced XM_006536140.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR10223971.8253.1,
                                           SRR10223970.10215.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-118               AC108908.16        20388-20505         c
            119-234             AC108908.16        17937-18052         c
            235-357             AC108908.16        16738-16860         c
            358-563             AC108908.16        11577-11782         c
            564-647             AC108908.16        8311-8394           c
            648-766             AC108908.16        5383-5501           c
            767-864             AC108908.16        2335-2432           c
            865-1040            AC108908.16        1883-2058           c
            1041-1170           AC108908.16        770-899             c
            1171-1298           AC163434.5         51095-51222
            1299-1480           AC163434.5         52729-52910
            1481-1600           AC163434.5         53034-53153
            1601-1755           AC163434.5         53575-53729
            1756-4431           AC163434.5         54263-56938
            4432-4631           AC163434.5         57146-57345
            4632-4961           AC163434.5         57444-57773
            4962-5090           AC163434.5         58007-58135
            5091-5429           AC163434.5         58640-58978
FEATURES             Location/Qualifiers
     source          1..5429
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 86.53 cM"
     gene            1..5429
                     /gene="Phrf1"
                     /note="PHD and ring finger domains 1"
                     /db_xref="GeneID:101471"
                     /db_xref="MGI:MGI:2141847"
     exon            1..118
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            119..234
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     CDS             141..5234
                     /gene="Phrf1"
                     /note="isoform 4 is encoded by transcript variant 4; PHD
                     and RING finger domain-containing protein 1"
                     /codon_start=1
                     /product="PHD and RING finger domain-containing protein 1
                     isoform 4"
                     /protein_id="NP_001406065.1"
                     /db_xref="GeneID:101471"
                     /db_xref="MGI:MGI:2141847"
                     /translation="MDDDNLDELVAHSPGPDGPPRVGSSELASDAEESSNGQSGDSED
                     DTGSEQDDDTDGEETEGLSEEEDPEDRSGSEDSEDGVEMATAAIETQGKLEASSVPNS
                     DDDAESCPICLNAFRDQAVGTPETCAHYFCLDCIIEWSRNANSCPVDRTVFKCICIRA
                     QFNGKILKKIPVENTKACEAEEEDPTFCEVCGRSDREDRLLLCDGCDAGYHMECLDPP
                     LQEVPVDEWFCPECTVPGVDPTHDAAPVSDEEVSLLLADVVPTTSRLRPRVGRTRAIA
                     RTRQSERVRATVNRNRISSARRVQHVPRYLMSSLLDETIEAVATGLSTAVYQRPLTPR
                     VPAKRKRKAGRRKKVLGRKKTRSRSSVKSKSGSTRAKKRQHRVRKTKGRKLKNEVTAR
                     SRIARTLGLRRPVRGTSMPSVYKPVDPSLGLMRADIGAASLSLFGDPYELDPFDSNEE
                     QSADPPSPLSAKRRVLSRSALQSHQPVARPVAMGLSRRQLPAVAPEPSVEEAPVPDLL
                     GSILSGQSLLMMSSADVVIHRDGSLSAKRAAPVSLQRNSVTQSREESRLRDNPQPGAL
                     PSESASGGFVGDRQPNSGLSCGNRTALCCLPARIAQTPVRSDPSLTPRSGLSRTLSDE
                     NRPSRTHSSSPQLNGSNVRVSSASTKIVTHSSFPSKNTASGLPQRTGPRRPDFSKLPR
                     IPKIHRDGNKSTQDQAPASGHIVELPSTCISRLTGREGPGQPGRGRVDSEPSSRGPQE
                     TGSHTSGSRPPAPSSHGSLAHLGPSRGKGIGSSFESFRINIPGNTAHCSQLSSPGFCN
                     TFRPVDSKVQRKETPFPLFSIKKPKQLKSEIYDPFDPTGSDSSPPSSSPESLGPGLLP
                     SEITRTISINSPKAPAFQTVRCVTSYRVESIFGTEMEPEPQPPSEPVSGMLELLSKGS
                     AEGTSDLEQEGLGEIEPTEIRGSTARTQRPPPPDPWDDEDEVSCTPFFGSEERTVTCV
                     TVEEPGVLPSPDAPQITTHRIVEFRASSRSRSTSSSRSRKKTKKKKKKVAREHQRTRS
                     STRSGSRDRTSRSVSPVAEEHTRRHRAKTKSRRSSSDRASSQDRAKRRKDRDDRDREH
                     RRGSWGHGRCRRKSRSRSGSPGSSSCERHESKRRKRRHSGSRSRGSSLERDRRHKHRE
                     RSRERMDKQESVTRSRERRRWRSRSPSLEHRPRRPPSREKRAHSPEKKGPVREVSPAP
                     ATQGESRQDGDHSAEPPVSEVSVLPEVVSVLPEVVVADLNPPEVPPVLAEPVAHVPED
                     LDYGESVEAGHVFEDFSNEAIFIQLDDMSSPPSPESTDSSPERDFPPNPILPPASLPQ
                     DSTLPTIQREVLPIHSEDISKPVPQALAPSDQSLLKQDTVEITTTTPSTPAVVPMTKD
                     SPVLSARGWEAVRPRDAVAQAPLLRSRTLVKRVTWNLQEAEHSTPAALDRDPRLTTRH
                     PHSLSVGSSGTPLQRPQRPQEGDWDAEDRALIGFQQAPFSELPPPIHVLQESGLPDAD
                     PSQPPGAPRAEGLPAAGTLHSAGGILAQVYSPNMPPPLAQPSSILPYALVSQPSVQLI
                     LQGTLPLAGCGTAQSLAPVPTMPATVSELAVPTTNNSEERTATPKTAAEKTKKEEYMK
                     KLHMQERAVEEVKLAIKPFYQKREVTKEEYKDILRKAVQKICHSKSGEINPVKVANLV
                     KAYVDKYRHMRRHKKTEGGEEPPTQGAET"
     exon            235..357
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            358..563
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            564..647
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            648..766
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            767..864
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            865..1040
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1041..1170
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1171..1298
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1299..1480
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1481..1600
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1601..1755
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            1756..4431
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            4432..4631
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            4632..4961
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            4962..5090
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     exon            5091..5429
                     /gene="Phrf1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5370..5375
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Phrf1"
                     /note="hexamer: ATTATA"
     polyA_site      5425
                     /gene="Phrf1"
                     /note="major polyA site"
     polyA_site      5429
                     /gene="Phrf1"
                     /note="major polyA site"
ORIGIN      
        1 gcacttccgg gtcggggagc gcgcggcgac ggcggcggcg gctgaccggc ctacttgcgg
       61 tcgtgttcgg acagaggcgg gatcgtctag gagcgtccgg gaggcgcgag gttcccggag
      121 gtgaactcca atgtgcagcc atggatgacg acaacttgga tgagcttgtg gcgcacagcc
      181 ctgggccaga tggaccccca cgggttggct cctcagaact ggccagtgat gctgaagaaa
      241 gcagcaatgg ccaaagtgga gactctgaag atgatacagg cagtgagcag gatgatgaca
      301 cagatgggga ggaaacagag gggctgtctg aagaggaaga cccagaggat agatctggtt
      361 ctgaagactc agaagatgga gtagaaatgg caacggcagc aatagagact caagggaagc
      421 ttgaagctag cagtgtaccc aattctgatg atgatgcaga gagctgcccc atttgcctca
      481 atgcatttag agaccaggct gtgggcaccc cagagacctg tgcccattat ttctgcctgg
      541 attgcatcat cgaatggtcc aggaatgcca actcctgtcc tgttgatcga acagtattta
      601 aatgtatttg tattcgtgcc cagtttaatg gtaaaatctt aaagaagatt ccagtagaaa
      661 acactaaagc ttgtgaggct gaggaggaag acccgacttt ttgtgaggtg tgtggcagga
      721 gtgatcgtga ggaccggctc ctactgtgtg acggctgcga tgctgggtac cacatggaat
      781 gtttggaccc gcctctccag gaggtgcctg tggatgaatg gttctgccca gagtgtacgg
      841 tccctggtgt ggatcccact catgatgcag ctcctgtgag tgatgaggag gtctccttgc
      901 tactggctga tgtagtacct actacaagca ggcttcggcc tcgagtaggc aggacccggg
      961 ccatcgctag gacacggcag agtgagagag tgagggcaac tgtgaaccgg aaccggatct
     1021 cctctgccag aagggtccag catgtgccaa ggtacctcat gtcttctctg ctggatgaaa
     1081 ctattgaggc tgtcgccact gggctgagca ctgctgtata ccagcgtccc ttgacacctc
     1141 gtgtccctgc aaaacggaaa aggaaggcag ggagacgaaa gaaagtgctg ggaagaaaga
     1201 aaactcggtc caggtcatct gtgaaaagta agagtgggag tacgagagcc aagaaacgtc
     1261 agcaccgtgt aaggaagaca aaagggagga agctgaagaa tgaagtcaca gctcgttctc
     1321 gaattgcacg aacactaggc ctccgcaggc ctgtccgtgg caccagcatg ccatcagtgt
     1381 acaagccagt ggacccctcc ctcgggctga tgagggcaga cattggagca gcttccctgt
     1441 cactgtttgg agatccctat gagctggatc cttttgacag caatgaagaa cagtctgcag
     1501 atccaccttc ccctctgagt gccaagagga gagtgctgtc ccgctcagct ctgcagtctc
     1561 accagcctgt ggccagacct gtcgccatgg ggctctctag gaggcagctc cctgctgtgg
     1621 ccccagagcc cagcgtggag gaggcccccg ttcctgacct gttgggaagc atcctgtctg
     1681 gccagagcct cctgatgatg agcagtgctg atgttgtcat acaccgggat ggctctctca
     1741 gcgccaagag ggcagctcct gtttctcttc agcgaaattc tgtgactcaa tccagagaag
     1801 agtccaggct cagagacaac ccgcagcctg gggcactacc ctcagagagt gcatctggtg
     1861 gattcgtggg agacagacaa ccaaactcag ggctgagctg tgggaataga acagctctgt
     1921 gctgtctccc tgcccgcatt gcccagacac ctgtgaggtc agatccctca ctgactcctc
     1981 gctcaggtct gtctaggacc ctttcagatg agaacaggcc cagccggaca cacagcagca
     2041 gcccccaact caatggctcc aatgtacggg ttagttctgc ctcgactaag atcgtgactc
     2101 attctagctt tccatcgaaa aatacagctt ctgggcttcc tcagagaaca ggtcccagga
     2161 gacctgattt ctccaagcta cccaggatac caaagatcca tcgggatggc aataagagca
     2221 cgcaggacca ggccccagcc agcggccaca ttgtcgagct ccctagcact tgcatcagcc
     2281 gcctgactgg cagggaaggc cctgggcagc caggacgagg ccgagtcgac agtgagccaa
     2341 gcagcagggg tccccaggag actggctcac acacaagtgg ttctcgacct cctgcgccca
     2401 gctcccatgg cagcttagcc catctagggc cctcaagagg aaagggcatt gggtctagct
     2461 ttgaaagttt ccggatcaac atccctggga acactgcaca ttgcagccag ctgtccagcc
     2521 ctggattctg taacacgttc cggccggtag acagcaaggt gcagaggaag gagaccccgt
     2581 tccccctctt ctccatcaag aagccgaaac aactcaaaag cgaaatctat gacccctttg
     2641 accccactgg ctcggactct agccctccta gcagcagccc agagagtctt ggtccaggcc
     2701 tcctaccctc tgagatcaca agaactatct ccatcaacag cccaaaggcc ccagccttcc
     2761 agactgtgcg ctgtgttacc tcctacaggg tagaaagcat ctttgggact gagatggaac
     2821 ctgagcccca gccccctagt gagcctgtat ctggcatgct ggagttactc agcaagggat
     2881 ctgctgaggg aacctctgat ttggagcaag agggactagg ggaaatagag cctacagaga
     2941 ttcggggctc cacagcccgg acacagaggc cacccccacc agacccttgg gatgatgagg
     3001 acgaagtgtc ctgtacaccc ttctttggct ctgaggaacg gacagtgacg tgtgtgactg
     3061 ttgaggagcc aggtgttcta ccaagcccag atgctccaca gatcaccacc cacagaattg
     3121 tggagttcag ggcctcatcc cgttcccgct ccacctccag ctcccgaagc aggaagaaaa
     3181 cgaagaagaa gaagaaaaag gttgccagag agcaccagag gacacgctcc agcactcgct
     3241 ctggctccag ggacaggact tcacgctcag tatctccagt tgctgaggaa cacaccagga
     3301 ggcacagagc caagactaag agccggaggt cttccagtga ccgtgccagc agccaggaca
     3361 gagcaaagag gaggaaggac agagacgaca gagacaggga gcataggcgg ggttcctggg
     3421 gtcatggcag gtgccggcgg aagtccaggt ctcgctcagg gagccctggc agttcttcct
     3481 gtgagcgcca tgagagtaag agacggaaga ggcgacattc ggggtccagg tctcggggca
     3541 gcagtctgga gagggaccgg agacacaaac atcgggagag gagccgagag cgaatggaca
     3601 agcaggagag tgtgacccgg tcccgggaga ggaggaggtg gcgatctcgg tcgcctagct
     3661 tggagcatag gccacgaagg ccaccttccc gtgagaagcg tgcccattcc ccagagaaaa
     3721 aggggcctgt gagggaggtt tccccagccc ctgctacaca gggggagtcg aggcaggatg
     3781 gagaccactc tgctgagcct ccggtttcag aagtaagtgt cttgcctgag gtagtaagtg
     3841 tcctgccaga ggtggttgtg gctgacctga accctccaga agtccctcct gtcctggcag
     3901 agccagttgc ccatgtgcct gaggacctgg actatggtga gtctgtggag gcaggccacg
     3961 tctttgagga tttttcaaat gaagccatct tcatccagct cgatgacatg agctcgcctc
     4021 cttctcctga gagtacagac tcctcccctg agagagactt cccaccaaat cccatactgc
     4081 ccccagccag ccttccacaa gacagtactt tacctaccat ccaaagggag gtgttaccca
     4141 ttcacagtga agatatctca aagcctgtgc cccaggcctt ggccccatca gaccagagtc
     4201 tgctcaagca agacactgta gagatcacca ctacaactcc cagcacccca gctgtggtgc
     4261 ccatgacaaa ggacagtccg gtgctgagtg caagaggatg ggaagcagtc aggcccaggg
     4321 atgctgtggc ccaggcccca ctgctacgat cccgaaccct ggtgaaaaga gtcacctgga
     4381 acctgcagga agcagaacac agcacgccag cagccctgga cagagatcca aggttgacca
     4441 caaggcatcc acactccctg tctgttgggt cctcagggac accacttcag aggccccaga
     4501 ggccccagga aggagactgg gatgcagagg acagggccct cataggattt cagcaggcac
     4561 cattctccga gctgccccct cccatccacg tgctccagga gtctgggtta cctgatgcag
     4621 atccctctca gccccctggt gctcccaggg cagaagggct tccagctgct gggactctgc
     4681 actcagcagg gggtattctt gcccaggttt acagccccaa catgccacca cccttggctc
     4741 agccctcaag catcctgccc tatgcactgg tcagccagcc ctcagtccag ttgatcctgc
     4801 aggggaccct tcccctagca ggctgcggta cagcacagag cctggcacca gtgcccacaa
     4861 tgccagctac agtctcagag ctagctgttc caaccaccaa caactcagaa gaaaggactg
     4921 ctactcccaa aacagctgct gagaagacca aaaaggagga gtacatgaag aagctgcaca
     4981 tgcaagaacg ggctgtggag gaggtgaagc tggccattaa acccttctac cagaagagag
     5041 aagtgaccaa ggaggagtac aaggacatac tgcgcaaagc cgtgcagaag atctgccaca
     5101 gcaagagtgg tgaaatcaac cctgtaaagg tggccaacct ggtgaaggcc tatgtggaca
     5161 aatacaggca tatgcgcaga cacaagaaga ctgaaggtgg agaggagcca cccactcagg
     5221 gtgctgagac ctgaggctag ccactctctg gggaggcatc cccagcggga aagaaatggg
     5281 gccgccagca ctcctgcctc tgagggtctc atggtacctg tctgcacctg tcttgcttat
     5341 aattgaaaac tggacttttt tatatgtata ttatagatac actgtttcca ttgtgttcta
     5401 atttatcaaa aatggcttat gtttagaaa
//
