LOCUS       NM_001379576            5148 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus ring finger protein 38 (Rnf38), transcript variant 6,
            mRNA.
ACCESSION   NM_001379576 XM_011250119
VERSION     NM_001379576.1
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 5148)
  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 5148)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 5148)
  AUTHORS   Jiang,D., Burger,C.A., Casasent,A.K., Albrecht,N.E., Li,F. and
            Samuel,M.A.
  TITLE     Spatiotemporal gene expression patterns reveal molecular
            relatedness between retinal laminae
  JOURNAL   J Comp Neurol 528 (5), 729-755 (2020)
   PUBMED   31609468
REFERENCE   4  (bases 1 to 5148)
  AUTHORS   Dickinson,M.E., Flenniken,A.M., Ji,X., Teboul,L., Wong,M.D.,
            White,J.K., Meehan,T.F., Weninger,W.J., Westerberg,H., Adissu,H.,
            Baker,C.N., Bower,L., Brown,J.M., Caddle,L.B., Chiani,F., Clary,D.,
            Cleak,J., Daly,M.J., Denegre,J.M., Doe,B., Dolan,M.E., Edie,S.M.,
            Fuchs,H., Gailus-Durner,V., Galli,A., Gambadoro,A., Gallegos,J.,
            Guo,S., Horner,N.R., Hsu,C.W., Johnson,S.J., Kalaga,S., Keith,L.C.,
            Lanoue,L., Lawson,T.N., Lek,M., Mark,M., Marschall,S., Mason,J.,
            McElwee,M.L., Newbigging,S., Nutter,L.M., Peterson,K.A.,
            Ramirez-Solis,R., Rowland,D.J., Ryder,E., Samocha,K.E.,
            Seavitt,J.R., Selloum,M., Szoke-Kovacs,Z., Tamura,M., Trainor,A.G.,
            Tudose,I., Wakana,S., Warren,J., Wendling,O., West,D.B., Wong,L.,
            Yoshiki,A., MacArthur,D.G., Tocchini-Valentini,G.P., Gao,X.,
            Flicek,P., Bradley,A., Skarnes,W.C., Justice,M.J., Parkinson,H.E.,
            Moore,M., Wells,S., Braun,R.E., Svenson,K.L., de Angelis,M.H.,
            Herault,Y., Mohun,T., Mallon,A.M., Henkelman,R.M., Brown,S.D.,
            Adams,D.J., Lloyd,K.C., McKerlie,C., Beaudet,A.L., Bucan,M. and
            Murray,S.A.
  CONSRTM   International Mouse Phenotyping Consortium; Jackson Laboratory;
            Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris
            (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for
            Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource
            Center
  TITLE     High-throughput discovery of novel developmental phenotypes
  JOURNAL   Nature 537 (7621), 508-514 (2016)
   PUBMED   27626380
  REMARK    Erratum:[Nature. 2017 Nov 16;551(7680):398. doi:
            10.1038/nature24643.. PMID: 29144450]
REFERENCE   5  (bases 1 to 5148)
  AUTHORS   Yokoyama,S., Ito,Y., Ueno-Kudoh,H., Shimizu,H., Uchibe,K.,
            Albini,S., Mitsuoka,K., Miyaki,S., Kiso,M., Nagai,A., Hikata,T.,
            Osada,T., Fukuda,N., Yamashita,S., Harada,D., Mezzano,V., Kasai,M.,
            Puri,P.L., Hayashizaki,Y., Okado,H., Hashimoto,M. and Asahara,H.
  TITLE     A systems approach reveals that the myogenesis genome network is
            regulated by the transcriptional repressor RP58
  JOURNAL   Dev Cell 17 (6), 836-848 (2009)
   PUBMED   20059953
REFERENCE   6  (bases 1 to 5148)
  AUTHORS   Powles,N., Babbs,C., Ficker,M., Schimmang,T. and Maconochie,M.
  TITLE     Identification and analysis of genes from the mouse otic vesicle
            and their association with developmental subprocesses through in
            situ hybridization
  JOURNAL   Dev Biol 268 (1), 24-38 (2004)
   PUBMED   15031102
REFERENCE   7  (bases 1 to 5148)
  AUTHORS   Carninci,P., Waki,K., Shiraki,T., Konno,H., Shibata,K., Itoh,M.,
            Aizawa,K., Arakawa,T., Ishii,Y., Sasaki,D., Bono,H., Kondo,S.,
            Sugahara,Y., Saito,R., Osato,N., Fukuda,S., Sato,K., Watahiki,A.,
            Hirozane-Kishikawa,T., Nakamura,M., Shibata,Y., Yasunishi,A.,
            Kikuchi,N., Yoshiki,A., Kusakabe,M., Gustincich,S., Beisel,K.,
            Pavan,W., Aidinis,V., Nakagawara,A., Held,W.A., Iwata,H., Kono,T.,
            Nakauchi,H., Lyons,P., Wells,C., Hume,D.A., Fagiolini,M.,
            Hensch,T.K., Brinkmeier,M., Camper,S., Hirota,J., Mombaerts,P.,
            Muramatsu,M., Okazaki,Y., Kawai,J. and Hayashizaki,Y.
  TITLE     Targeting a complex transcriptome: the construction of the mouse
            full-length cDNA encyclopedia
  JOURNAL   Genome Res 13 (6B), 1273-1289 (2003)
   PUBMED   12819125
REFERENCE   8  (bases 1 to 5148)
  AUTHORS   Zarsky,H.A., Tarnasky,H.A., Cheng,M. and van der Hoorn,F.A.
  TITLE     Novel RING finger protein OIP1 binds to conserved amino acid
            repeats in sperm tail protein ODF1
  JOURNAL   Biol Reprod 68 (2), 543-552 (2003)
   PUBMED   12533418
  REMARK    Erratum:[Biol Reprod. 2003 Oct;69(4):1447]
REFERENCE   9  (bases 1 to 5148)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL805952.11 and AL732563.5.
            
            On Apr 9, 2020 this sequence version replaced XM_011250119.3.
            
            Transcript Variant: This variant (6), as well as variants 2-5, 7,
            and 8, encodes isoform 2.
            
            ##Evidence-Data-START##
            CDS exon combination :: SRR1660815.10183.1, SRR11927933.2419870.1
                                    [ECO:0000331]
            RNAseq introns       :: single sample supports all introns
                                    SAMN01164143 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-320               AL805952.11        26038-26357         c
            321-383             AL732563.5         191846-191908       c
            384-577             AL732563.5         185216-185409       c
            578-791             AL732563.5         181881-182094       c
            792-959             AL732563.5         176304-176471       c
            960-1130            AL732563.5         175151-175321       c
            1131-1292           AL732563.5         171526-171687       c
            1293-1399           AL732563.5         170411-170517       c
            1400-1484           AL732563.5         167746-167830       c
            1485-1606           AL732563.5         166496-166617       c
            1607-1706           AL732563.5         164400-164499       c
            1707-5148           AL732563.5         159071-162512       c
FEATURES             Location/Qualifiers
     source          1..5148
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="4"
                     /map="4 23.13 cM"
     gene            1..5148
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /note="ring finger protein 38"
                     /db_xref="GeneID:73469"
                     /db_xref="MGI:MGI:1920719"
     exon            1..320
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            321..383
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            384..577
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     CDS             471..1769
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /EC_number="2.3.2.27"
                     /note="isoform 2 is encoded by transcript variant 6; E3
                     ubiquitin-protein ligase RNF38; RING-type E3 ubiquitin
                     transferase RNF38"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase RNF38 isoform 2"
                     /protein_id="NP_001366505.1"
                     /db_xref="GeneID:73469"
                     /db_xref="MGI:MGI:1920719"
                     /translation="MRPWEMTSNRQPPSVRPNQHHFSGERCNTPARNRRSPPVRRQRG
                     RRERLSRHNSISQDENYHHLPYAQQQAIEEPRAFHPPNVSPRLLHPAAHPPQQNAVMV
                     DIHDQLHQGTVPVSYTVTTVAPHGLPLCTGQHIPACSTQQVPGCSVVFSGQHLPVCSV
                     PPPMLQACSVQHLPVPYAAFPPLISSDPFLIHPPHLSPHHPPHLPPPGQFVPFQTQQS
                     RSPLQRIENEVELLGEHLQVGSFTYPPSAHPPTLPPSAPLQFLTHDPLHQEVSFGVPY
                     PPFMPRRLTGRSRYRSQQPMPPPPYHPSLLPYVLSMLPVPPAVGPTFSFELDVEDGEV
                     ENYEALLNLAERLGEAKPRGLTKADIEQLPSYRFNPSNHQSEQTLCVVCMCDFESRQL
                     LRVLPCNHEFHAKCVDKWLKGNRTCPICRADASEVHRDSE"
     exon            578..791
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            792..959
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            960..1130
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1131..1292
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1293..1399
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1400..1484
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1485..1606
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1607..1706
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     exon            1707..5148
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1916..1921
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /note="hexamer: TATAAA"
     polyA_site      1943
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
     regulatory      5123..5128
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /note="hexamer: AATAAA"
     polyA_site      5148
                     /gene="Rnf38"
                     /gene_synonym="1700065B19Rik; 2610202O07Rik; Oip1"
                     /note="major polyA site"
ORIGIN      
        1 gtgcggctgg cgggcgtgcc tccggaggcc ggggcggttg ggacggcggg cagaaaagat
       61 ggggcttccc aggcgctagt cggctccttc ggcgcagggc gtggagccgt gggtttctgg
      121 agaggcgcgt gtgatggtgc caagaggaag gaagcgccgt gacagcgcct cagtcggaac
      181 ccgggttccg agggcaagga cgatcgggga cggcggccct ggcgagctgg ccgccggcgg
      241 ggcgagcagt cacaatagga ggcggcggcc cggccgggag cggtgggagc agccccgcag
      301 ggcggagcct cccctcgcag atatctcccg gggccaattc agcacctcta cctggccatc
      361 ctaacaaggt gatttgtgaa aggagtgaag atagtccaag tcctaagaga cagcgcctct
      421 ctcattcagt ctttgattat acatcagcat caccagctcc ctcaccacca atgcgaccat
      481 gggagatgac atcaaatagg cagccccctt cagttcgacc aaatcaacat cacttctcag
      541 gggaacgctg taacacacct gcacgcaaca gaagaagtcc tcctgttagg cgtcagcgag
      601 gaagaaggga acgtctgtct cgacataatt ccattagtca agatgaaaac tatcaccatc
      661 tcccttatgc acagcagcaa gcaatagagg aacctcgagc cttccaccct ccgaatgtat
      721 ctccccgtct gttacatcca gctgcccatc ccccccagca gaatgcagtc atggttgaca
      781 tacatgatca gctccatcaa ggaacagttc ctgtctccta cacggtaact acggtggcac
      841 cccatgggct tccactctgc actggccagc acatccctgc ttgcagtaca cagcaggtcc
      901 caggatgctc ggtggttttc agtggacaac acctccccgt ctgtagtgtg cctcctccaa
      961 tgcttcaggc atgttcagtt cagcacttac cagtaccata tgctgcgttc ccgcccctca
     1021 tttctagcga tccgtttctt atacatcctc ctcatctttc tccccatcat cctccccact
     1081 tgccaccacc aggccaattt gtccctttcc aaacacagca gtcacgatcg cctctgcaga
     1141 ggatagaaaa tgaagtggag ctcttaggag aacatcttca agtaggcagt tttacttatc
     1201 ccccttcagc ccatccccca acattacctc cgtcagctcc tttgcagttc ctgacacatg
     1261 accctttgca tcaggaggtg tcctttggag taccttaccc accatttatg cctcggagac
     1321 tcacaggacg tagtagatac cgatcccagc agccaatgcc ccctcctcct taccatccca
     1381 gcttactacc atacgtgcta tcaatgcttc cagtaccacc tgcagtgggc ccaaccttca
     1441 gctttgaatt agatgtagaa gacggagaag ttgaaaatta tgaggccctg ttaaacttgg
     1501 cggagagact gggagaggcg aaacctcggg gactgactaa agcagatatt gaacagcttc
     1561 cttcgtacag gttcaatcct agcaaccacc agtcagagca gactttgtgt gtagtatgca
     1621 tgtgtgattt tgagtcaagg cagcttctta gagtcttacc ttgtaaccac gagttccatg
     1681 ccaagtgtgt tgataaatgg cttaagggaa accgtacctg cccaatttgc cgagctgatg
     1741 cttcagaagt gcatcgcgat tcagagtgac cagcctaaga gcacaaattt agtttgggtg
     1801 ttcctcatca catgtatata tggactatcc atcgaactta acctgtgtgg cttccagccc
     1861 tccctttacc aaaagggtca atggaccttt ctttgcactg tgtgacttaa tcaactataa
     1921 aagcttacaa ttagtcttca caattatggg attgttatac taactgtgtg attggaactc
     1981 caaagacctt ttctttagct taattttgtg tgtgcactaa cattccctgg tttttgtgtg
     2041 atcattccga gtgttgctgc aagattacag tggacgtgat cttttagcat gtgcttttat
     2101 aaaaagtggt agctccagat gatatagcaa tctaccttat atagagcctt cagaaactgt
     2161 gagtggaagt gagtgaagcg tatgactgct ggtgatcagt gaatctgtga gagaatgtgt
     2221 gcaactacat gtgtgggggc atggtagcta ctgtgtgtgt gagatcctat ataccagcat
     2281 gtaccaagaa tgtgtgtgta gttttaatta tgctgcaatg tataatctgg tgtgttattt
     2341 aaacagcact agtactgtac actggttttc ccttgtgttt gctgttgcac actgattgct
     2401 aagggtgcat ccattctaag cattgaatac tccatcccct tcccgcccag tgaatggaat
     2461 gagaaaagcc ttcttccttt gcttcaggca gctgtcccct tctcttcctt ggtgatcctg
     2521 agtgggtcac ttaaggaaaa agtatcagat tctcactcca tgacctgatt ttttttgttg
     2581 ttgttttttt gttttgtaat tttcaattct attgtaaaag aaacttaagt ctccaacttg
     2641 ctgtttccaa aaagaaggtg caatatcata tacatcatta gcaatattag catttcaatc
     2701 agcgatctga gtgttagttg tttttccttt acatttctag tagtttcctt acagaaagga
     2761 cctgcatttt tattaatgtg tagatttatg gtctgatctg aagatgtttg agtaatatat
     2821 ttttaagaac accactggtc ctgtaagtct tgcctccttg gcttctacta gagcaaaatc
     2881 tgctgccaag tcagcctggt ttctggttgt gttcttcact caggcctcca tgggcaacaa
     2941 tggtttcagg agaactgttt gtttctgtgt gaattgagtt gacacactcc agtcctgagc
     3001 tgctctgctg ccgcttccct cagttaacct tctcaccgaa accttagttc aggatggatc
     3061 aagtgctgtg acagtgacag ctcatttctc aggcctggtt tgctttgatg tattactctt
     3121 cttcttttaa tttatgttag aacgagaaaa gcttaataca acaggtgccc agaatacttg
     3181 cagtgtaaat gaagattgga tttttgtata aaaagataat gctgtcaaac gggaactgac
     3241 ctttattgaa tctgaaatga tacatagctg tgtgtgtata tatatttttt aaaaataggt
     3301 tcattgaaca taaatcagat tgtttgaggt catttttcag caacattgga ttcctttctc
     3361 ctcggtgtgc tcagccttct ctgcagcctc tgtgagtttt cagcacgtgt gcagccacac
     3421 aggctgcaac cttccactcg cagccgctgc tgacacctgg ctgccgacct cactcagctc
     3481 acagtgggct ccaggcccgt ttttactcag acagggacag tgttcaccta cttgatactg
     3541 ccgtgtttct taccctccct tgaagtttct ctaagctcat cacagcctag agttcaggaa
     3601 agttaatcca cacagaagca caattttgtc ctcttccaga cactgttgcc tctacctagt
     3661 tagacaaata ggatttgacc tacattctgt tgcccctagg tttgtgttag tgtcagaaat
     3721 acttaaacag tggtaaatgc acatgttact tttaaatcat taggataact cctgtctggt
     3781 tcctaatgaa taaaaggtgt gttaaatacc aagattattg acgtatatac taatcagctc
     3841 caaatcacat acagtttaat ctttattttt ttaatttaaa gaaatcatgt ttaaaatgat
     3901 aaaactccat cttatatata gacttttgta tagcttcaag aactttatac ctgtacagct
     3961 ctaacatgac actgctccac tcagtattca tcctgttgac gcacacaggt gagcactttc
     4021 ctaactactg cagacagact gactgccaag gcacactgtg ctcacgactg gaaagtagcc
     4081 tttttcttct atcaatgttt accataaagt tcctttctca gtagattttt ctttcttttt
     4141 taaaagaggt ggttggcaat ttaggattca tctgggtctg tcctggtaaa gtcctgctgt
     4201 gcagatgact gctgtctcct gggaaggtct cggcacggag ctctcgaggc tgtgcagacc
     4261 tgctcgtgga gggcttaggc tgtcttaggt gcacacttgc acggtctcca tggcctccgt
     4321 gagcatcttt gtagctagca atgaggaagt gcaggtgtct acaggccatc acgtggggag
     4381 gcgcaccagg cgacagagga tgtggtggcc ttcctcctag gactgattgg cgtcgccgtc
     4441 ctaacccagc tgtggagttt ttgtatgatt tgatttgggg ttttgctgta tttttgtttg
     4501 gtttggtttg gtttggtttg gtatggtttg tttggggttt ttttgttgtt gttggttttt
     4561 gtttttgttt tcgtttttgc atgaatcgcg atattttgta cttttaaaaa ctccaacttc
     4621 cacaaaacaa ctcaaggcct ccaagtatca agatgtcctg aaattttttt ttttttagca
     4681 gaatctgaaa ttagattttg tacactccct ggaatgtaat tgttaacatt cttacatttg
     4741 ggcctcttca cacaccgtct gcctgcctgc ttccttctga gaatattttc ccagtatctc
     4801 caggccttcc ttagtctgtc ccaccgtgca tctgcttacc tcatggcgct gtttgtttca
     4861 gattttgaaa gctcacaggt gtttgttgga atcatttgcc gagtcatttc ctcaaatcat
     4921 attccattgt gtcagttaac atagagtttt aaatgtatgt attataaata cctgtaacca
     4981 aaatcatttg aaggcttgat aaatttttaa caaagtttgt acatttttta tgaaagttac
     5041 tagtaatgct ttactaagta gtgcaatgaa tttttatttt taatccctgt gcccaatttt
     5101 ggagtttgag agggttgttg gtaataaatg tatgatgtac acttcaaa
//
