LOCUS       NM_018061               4831 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens pre-mRNA processing factor 38B (PRPF38B), transcript
            variant 1, mRNA.
ACCESSION   NM_018061
VERSION     NM_018061.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 4831)
  AUTHORS   Abdel-Fatah,T.M.A., Rees,R.C., Pockley,A.G., Moseley,P., Ball,G.R.,
            Chan,S.Y.T., Ellis,I.O. and Miles,A.K.
  TITLE     The localization of pre mRNA splicing factor PRPF38B is a novel
            prognostic biomarker that may predict survival benefit of
            trastuzumab in patients with breast cancer overexpressing HER2
  JOURNAL   Oncotarget 8 (68), 112245-112257 (2017)
   PUBMED   29348822
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4831)
  AUTHORS   Kim,J.E., Tannenbaum,S.R. and White,F.M.
  TITLE     Global phosphoproteome of HT-29 human colon adenocarcinoma cells
  JOURNAL   J Proteome Res 4 (4), 1339-1346 (2005)
   PUBMED   16083285
REFERENCE   3  (bases 1 to 4831)
  AUTHORS   Lee,S.Y., Obata,Y., Yoshida,M., Stockert,E., Williamson,B.,
            Jungbluth,A.A., Chen,Y.T., Old,L.J. and Scanlan,M.J.
  TITLE     Immunomic analysis of human sarcoma
  JOURNAL   Proc Natl Acad Sci U S A 100 (5), 2651-2656 (2003)
   PUBMED   12601173
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DA039951.1, BC130346.1 and AL591719.8.
            
            On Nov 22, 2018 this sequence version replaced NM_018061.3.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (a).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660805.72488.1,
                                           SRR1660807.227654.1 [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000370025.9/ ENSP00000359042.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-254               DA039951.1         1-254
            255-3255            BC130346.1         1-3001
            3256-4831           AL591719.8         4644-6219
FEATURES             Location/Qualifiers
     source          1..4831
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p13.3"
     gene            1..4831
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="pre-mRNA processing factor 38B"
                     /db_xref="GeneID:55119"
                     /db_xref="HGNC:HGNC:25512"
     exon            1..558
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     CDS             283..1923
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="isoform a is encoded by transcript variant 1;
                     pre-mRNA-splicing factor 38B; sarcoma antigen NY-SAR-27;
                     PRP38 pre-mRNA processing factor 38 domain containing B"
                     /codon_start=1
                     /product="pre-mRNA-splicing factor 38B isoform a"
                     /protein_id="NP_060531.2"
                     /db_xref="CCDS:CCDS788.1"
                     /db_xref="GeneID:55119"
                     /db_xref="HGNC:HGNC:25512"
                     /translation="MANNSPALTGNSQPQHQAAAAAAQQQQQCGGGGATKPAVSGKQG
                     NVLPLWGNEKTMNLNPMILTNILSSPYFKVQLYELKTYHEVVDEIYFKVTHVEPWEKG
                     SRKTAGQTGMCGGVRGVGTGGIVSTAFCLLYKLFTLKLTRKQVMGLITHTDSPYIRAL
                     GFMYIRYTQPPTDLWDWFESFLDDEEDLDVKAGGGCVMTIGEMLRSFLTKLEWFSTLF
                     PRIPVPVQKNIDQQIKTRPRKIKKDGKEGAEEIDRHVERRRSRSPRRSLSPRRSPRRS
                     RSRSHHREGHGSSSFDRELEREKERQRLEREAKEREKERRRSRSIDRGLERRRSRSRE
                     RHRSRSRSRDRKGDRRDRDREREKENERGRRRDRDYDKERGNEREKERERSRERSKEQ
                     RSRGEVEEKKHKEDKDDRRHRDDKRDSKKEKKHSRSRSRERKHRSRSRSRNAGKRSRS
                     RSKEKSSKHKNESKEKSNKRSRSGSQGRTDSVEKSKKREHSPSKEKSRKRSRSKERSH
                     KRDHSDSKDQSDKHDRRRSQSIEQESQEKQHKNKDETV"
     exon            559..627
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     exon            628..779
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     exon            780..840
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     exon            841..1064
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     exon            1065..4831
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1965..1970
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: ATTAAA"
     polyA_site      1987
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="major polyA site"
     regulatory      2250..2255
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: AATAAA"
     polyA_site      2269
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="major polyA site"
     regulatory      3064..3069
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: AATAAA"
     polyA_site      3086
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="major polyA site"
     regulatory      3689..3694
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: AATGAA"
     polyA_site      3706
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="major polyA site"
     regulatory      4769..4774
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: ATTAAA"
     polyA_site      4788
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
     regulatory      4807..4812
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
                     /note="hexamer: ATTAAA"
     polyA_site      4831
                     /gene="PRPF38B"
                     /gene_synonym="NET1"
ORIGIN      
        1 atcttgttcc caggggcagt tggcggaaga gatcgagctc cctggctgcc ggctcgcctt
       61 ctgcgtggag ttctcgcggt ctgggtttcg ctgtctgctc ttggcccggg gtcattttgt
      121 cggcgtcggg tgccctctct tgcccagctg gggcacagcg aggcggcccc ttctcccgac
      181 gacgttcgat ggagtagggt cccagaccgt tgtcccgaag agcgagatcg agcttggccc
      241 cctccccccc ctccttccct ccctccttcc ttccgccgca acatggctaa caacagcccc
      301 gcgctgacag gcaactcgca gccgcagcac caggcggctg cagctgcggc tcagcaacag
      361 cagcagtgcg gcggcggcgg cgctaccaag ccggcggtct ccggcaagca gggcaatgtg
      421 ctcccgctct ggggcaacga gaagaccatg aacctcaacc ccatgatcct gaccaacatc
      481 ctgtcgtcgc cttacttcaa agtacagctc tacgagctca agacctacca cgaggtggtg
      541 gacgagatct actttaaggt cacgcacgtt gaaccatggg agaaaggaag caggaaaaca
      601 gcgggccaga cagggatgtg cggaggggtt cgaggtgttg gaacaggagg aattgtttct
      661 acagcatttt gcctgttata caaattattt accctgaagt taactcgaaa gcaagtgatg
      721 ggtcttataa cacacacaga ctctccatat attagagcgc ttggatttat gtatataaga
      781 tatacacagc cccctacaga tctgtgggac tggtttgaat ccttccttga tgatgaagag
      841 gacctagatg tgaaggctgg tggaggctgt gtaatgacca ttggagaaat gctacgatct
      901 tttctcacaa aactggagtg gttttctacc ttgtttccaa gaattccagt tccagttcaa
      961 aagaatattg atcaacagat taaaacccga cctagaaaaa tcaagaaaga tgggaaggaa
     1021 ggtgctgagg aaatagacag acatgttgaa cgcagacgtt caaggtctcc aaggagatct
     1081 ctgagtccac ggaggtcccc aagaaggtca agaagtagaa gtcatcatcg ggagggccat
     1141 gggtcttcta gttttgacag agaattagaa agagagaaag aacgccagcg actagagcgt
     1201 gaagccaaag aaagggagaa agaacggcga agatcccgaa gtattgaccg ggggttagaa
     1261 cgcaggcgca gcagaagtag ggaaaggcat agaagtcgca gtcgaagtcg tgataggaaa
     1321 ggggatagaa gggacaggga tcgagaaaga gagaaagaaa atgagagagg tagaagacga
     1381 gatcgtgact atgataagga aagaggaaat gaacgagaaa aagagagaga gcgatcaaga
     1441 gaaaggtcca aggaacagag aagtagggga gaggtagaag agaagaaaca taaagaagac
     1501 aaagatgata ggcggcacag agatgacaaa agagattcca agaaagagaa aaaacacagt
     1561 agaagcagaa gcagagaaag gaaacacaga agtaggagtc gaagtagaaa tgcagggaaa
     1621 cgaagtagaa gtagaagcaa agagaaatca agtaaacata aaaatgaaag taaagaaaaa
     1681 tcaaataaac gaagtcgaag tggcagtcaa ggaagaactg acagtgttga aaaatcaaaa
     1741 aaacgggaac atagtcccag caaagaaaaa tctagaaagc gtagtagaag caaagaacgt
     1801 tcccacaaac gagatcacag tgatagtaag gaccagtcag acaaacatga tcgtcgaagg
     1861 agccaaagta tagaacaaga gagccaagaa aaacagcata aaaacaaaga tgagactgtg
     1921 tgaaaatatt ttgtaaaagt ggatcacatt gaatcctata aatgattaaa tctgcttttt
     1981 tcccccacgt tgagattgtg cagtagttcg cactcctcaa gctctccctg taggctgcat
     2041 tttcatttcc tctttcgtgt agggaagtgc ctttgtaatt ccatttattg cattggtgtt
     2101 ttcacccaat tgttaagttt gatacatgat gcacagattg ttcttgcatt tttattgttt
     2161 gtttttgaaa tgtacagtct gtacatatgt cctgaaaatg ttttaattcc tttggcatgg
     2221 ttgccatgtt ggttaaattt gtataaggca ataaactgcc actaatctat ttttgttttg
     2281 taggtgtggg attatggttt gtgtactgaa gttagcatgg ctgtgctttt cgtaatagaa
     2341 tgctaaagac tttgagaatg gatcttggat gtctattata ggagaagtat gtgctgccaa
     2401 tgtacaagaa ggcagcattg taggattaac attcttgtct actgtatatt atcttggaag
     2461 gctcttgtta atatgttaca cttaatattc tccacagtta cctttagaga gaatttatga
     2521 gaagttagtt tctgatgcag aggtttttag gctgtgattt catcaaaagt ccttttagca
     2581 ttctacctca aagggacact tagtatgcct aaaatttatt cacttagttt tcctttttta
     2641 tttgaaaaaa tacatgacat gtaatctttt tttcttgaat tctttctcag attttaaagt
     2701 actatattaa agaaaaaaat taatgtctaa agcctagcat tcttgcagaa ccctatacta
     2761 acatgtaatg gggagagggt ggggcagatg agtagagaaa cagattcaag cctcaagctt
     2821 ccaaagcatt tttataaatg gaaaatcctt aaattatgaa acagcttgat atagtgtcct
     2881 ttttttaaaa ttcagaactt tttttattga taatggagat tgctgtttga gtttttaaac
     2941 ttaatctaga acagaggagt attaaaagta atgctgtgct gcattattta agactatcag
     3001 caaattattt gatagattgt tcttacaact tgtattctga ttacagaacc atcatgagtg
     3061 tggaataaat actggattaa atcctttatc ctgggtcttg gcttttcccc catttgttaa
     3121 atttttttag catatttata ttgtggaaat tgatgaaacg tcagtagagt cacactttgt
     3181 gtacagggat gtcttagtgc ccagatgaca agtgaatttt ggagaaatgc atagactggg
     3241 attgggcatg tggtaatcaa taatctttat tagaatactt gataatggca gttccctttg
     3301 tcagtggttg ttacatgtgt catttgatta ctttgttcca tgtcaaagac gtttattggg
     3361 atacctttta cttggacaat atgttagcat tttttaaaat ttggacttga aattctttaa
     3421 gataattcac ccaattcttt ttagaaaaga aaatagaggc ccaaagtaat gatgtcagtg
     3481 ctagggctaa aactcagtat tctgacagtg tagtgaacct ggcacgcaca ttgaggtttg
     3541 ttttatctca ctggttatac tggccaacta atgcgcactc agaagccacc ttgcaaaaat
     3601 gttaaatgga gcaaacgagt acacttgcaa gagtcctcca tatgtgggct taacatatgt
     3661 accactccat tttagaaaaa tctcattaaa tgaattcttc taaaaatgat atgctttttt
     3721 cttttttaag aaaattcctt tgtcttttaa attgagcatc aagtgaatta gtgctataga
     3781 cacccagaag ttagaaaaac ctattgtata atatgaaagc cactaaattt gtcttgtgtt
     3841 gaaaatctac ttttagcata cctaaattat ggagctacta ctttggatat ggttccatgt
     3901 gaaatgtttt atctgactat tttaagtaaa atgtggaaag aatttaaatt acttcacatg
     3961 gaggtgaaag aactatcacc tcgattgaca gttcgatgat cgtcactaca tttgatttct
     4021 tgtgggtttt tagtttgttt ttgttttgag acgggcctgg ctctgtcacc cagactggag
     4081 tgcagtggtg caatctctgc tcactgcagc ctccacttcc ctggctcaag tgatcctccg
     4141 aacttggcct cctaagtagc tgggaccaca ggtgcatgct agcacacccg gctaatttgt
     4201 atttttggta gggttgggat ttcgccatgt tgcccaggct ggtcttgaac tcctggcctc
     4261 aagtgatcca cccacctcag cctcccaaag cgctgtgatt acaggtgtga gccaccactc
     4321 cagtcccttc ttacgatttt taaatatgtt tgcttttgag gaaaattatg gtaggtgtga
     4381 gaacatgtaa attgtgctag ttattgctat atatatgcat gatttatttg gagagtggct
     4441 tcctaagaaa ctgggaaaac aagtggctat gaaagacatc tcacatttct tgaaacatga
     4501 gaacatttgg acacgaacat cacacgccgg ggcctgttgt ggggtggggg actaggggag
     4561 ggataatatt aggagaaata cctaatgtag atgacaggtt gatgggtgca gctcaccacc
     4621 aaggtacatg tatatctagg taacaaaccg gcacgttctg cacatgtatc tgaacttaaa
     4681 gtataattta aaaaaatttt taatacagct taataagcat cctccatcca gtttttgtac
     4741 ttactggaat gatttcacct ttccatgtat taaaatcttt tgcctgtttt taatgttcaa
     4801 tttgcaatta aattctatac atgggcgagt a
//
