LOCUS       NM_183155               3710 bp    mRNA    linear   ROD 17-SEP-2023
DEFINITION  Mus musculus nrde-2 necessary for RNA interference, domain
            containing (Nrde2), transcript variant 2, mRNA.
ACCESSION   NM_183155 XM_484171 XM_912077
VERSION     NM_183155.3
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 3710)
  AUTHORS   Flemr M, Schwaiger M, Hess D, Iesmantavicius V, Ahel J, Tuck AC,
            Mohn F and Buhler M.
  TITLE     Mouse nuclear RNAi-defective 2 promotes splicing of weak 5' splice
            sites
  JOURNAL   RNA 29 (8), 1140-1165 (2023)
   PUBMED   37137667
  REMARK    GeneRIF: Mouse nuclear RNAi-defective 2 promotes splicing of weak
            5' splice sites.
REFERENCE   2  (bases 1 to 3710)
  AUTHORS   Sharov AA, Piao Y, Matoba R, Dudekula DB, Qian Y, VanBuren V, Falco
            G, Martin PR, Stagg CA, Bassey UC, Wang Y, Carter MG, Hamatani T,
            Aiba K, Akutsu H, Sharova L, Tanaka TS, Kimber WL, Yoshikawa T,
            Jaradat SA, Pantano S, Nagaraja R, Boheler KR, Taub D, Hodes RJ,
            Longo DL, Schlessinger D, Keller J, Klotz E, Kelsoe G, Umezawa A,
            Vescovi AL, Rossant J, Kunath T, Hogan BL, Curci A, D'Urso M, Kelso
            J, Hide W and Ko MS.
  TITLE     Transcriptome analysis of mouse stem cells and early embryos
  JOURNAL   PLoS Biol 1 (3), E74 (2003)
   PUBMED   14691545
REFERENCE   3  (bases 1 to 3710)
  AUTHORS   Piao Y, Ko NT, Lim MK and Ko MS.
  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
            AC166349.4, CD546085.1, BU055364.1, CN706272.1, BM933283.1,
            CK619854.1, DN174402.1, CN710548.1, BG067060.2 and AW989733.1.
            
            On Mar 12, 2014 this sequence version replaced NM_183155.2.
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the 5' coding region, compared to variant 1,
            resulting in an isoform (b) that is shorter than isoform a. The
            exon combination of this variant is inferred based on tiled partial
            transcript alignments.
            
            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 :: SRR7652917.760103.1,
                                           ERR3363658.1574652.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-35                AC166349.4         130706-130740       c
            36-165              CD546085.1         3-132
            166-258             BU055364.1         74-166
            259-600             CD546085.1         241-582
            601-951             CN706272.1         246-596
            952-1067            AC166349.4         114826-114941       c
            1068-1256           AC166349.4         113197-113385       c
            1257-1486           BM933283.1         1-230
            1487-1607           AC166349.4         111092-111212       c
            1608-1612           AC166349.4         108861-108865       c
            1613-2231           CK619854.1         1-619
            2232-2636           DN174402.1         242-646
            2637-2956           CN710548.1         167-486
            2957-3501           BG067060.2         207-751             c
            3502-3710           AW989733.1         203-411
FEATURES             Location/Qualifiers
     source          1..3710
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12"
     gene            1..3710
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="nrde-2 necessary for RNA interference, domain
                     containing"
                     /db_xref="GeneID:217827"
                     /db_xref="MGI:MGI:2670969"
     exon            1..114
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             51..3554
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="isoform b is encoded by transcript variant 2;
                     UPF0614 protein C14orf102 homolog; protein NRDE2 homolog;
                     nuclear exosome regulator NRDE2"
                     /codon_start=1
                     /product="nuclear exosome regulator NRDE2 isoform b"
                     /protein_id="NP_898978.2"
                     /db_xref="GeneID:217827"
                     /db_xref="MGI:MGI:2670969"
                     /translation="

MALFPAFADVSEASGDGAFRKELDWLSNPSFRVGNLTSLSRQTEEVTALASEGSPPPRSPLKSELSGESNTSEKLAQTSRKKKKEKKKRRKHQHHRKTKRRHEQLSSSGSESDTEAGKDRASRSIRDDQKEAEKPCQGSNAAAAVAAAAGHRSIWLEDIHDLTDVFRTDKKPDPANWEYKSLYRGDIARYKRKGDSCLGINPKKQCISWEGASAAKKHSHRHLERYFTKKNVGLMRTEGIAVCSNPEPASSEPVTFIPVKDSAEAATPVTSWLNPLGIYDQSTTQWLQGQGPAEQESKQPDSQQDRENAALKARVEEFNRRVRENPWDTQLWMAFVAFQDEVMRSPGIYALGEGEQEKHRKSLKLLLEKKLAVLERAIESNPGSVELKLAKLQLCSEFWEPSALAKEWQKLLFLHPNNTSLWQRYLSFCQSQFGTFSVSKLHSLYGKCLSTLSAVKDGSMLSHPVLPGTEEAMFGLFLQQCHFLRQAGHSEKVISLFQAMVDFTFFKPDSVKELPTKVQVEFFEPFWDSGEPRVGEKGARGWRAWMHQQERGGWVLITPDEDDEEPEEEDQEIKDKTLPRWQIWLAVERSRDQRHWRPWRPDKTKKQTEEDCEDPERQVLFDDIGQSLIRLSSPDLQFQLIQAFLQFLGVPSGFLPPASCLYLAMDESSIFESELYDEKPLTYFNPSFSGISCVGSMEQLGRPRWTKGHNREGEEFVRNVFHLVLPLLAGKQKSQLSLSWLRYEIAKVIWCLHTKKKRLKSQGKSCKKLAKNLLKEPENRNNFCLWKQYAHLEWLLGNTEDARKVFDTALSMAGSSELKDRELCELSLLYAELEMELSPDSRGATTGRAVHILTRLTESSPYGPYTGQVSSTQVLKARKAYELALQDCLGQSCASSPAPAEALDCLGSLVRCFMLFQYLTVGIDAAVQIYGRVFAKLKGSARLEDPGPEDSTSSQSLTNVLEAVSMMHTSLLRFHMNVCVYPLAPLRETLSDALKLYPGNQVLWRAYVQIQNKSHSANKTRRFFDTVTRSAKHLEPWLFAIEAEKLRKKLVESVQRVGGREVHATIPETGLTHRIRALFENAIRSDKGNQCPLLWRMYLNFLVSLGNKERSKGVFYKALQSCPWAKVLYMDAMEYFPDELQEILDVMTEKELRVRLPLEELELLLED"

     misc_feature    54..56
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="N-acetylalanine.
                     /evidence=ECO:0000250|UniProtKB:Q9H7Z3; propagated from
                     UniProtKB/Swiss-Prot (Q80XC6.3); acetylation site"
     misc_feature    546..860
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: MID/MTR4-interacting domain.
                     /evidence=ECO:0000250|UniProtKB:Q9H7Z3"
     misc_feature    546..833
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="MTR4-interacting domain (MID) found in nuclear
                     exosome regulator NRDE2 and similar proteins; Region:
                     NRDE2_MID; cd22200"
                     /db_xref="CDD:412062"
     misc_feature    order(546..569,576..581,591..596,600..602,606..650,
                     657..665,669..677,699..707,717..722,726..731,738..758,
                     783..794,804..833)
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    909..974
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    975..1073
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: HAT 1"
     misc_feature    999..1997
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
     misc_feature    1245..1343
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: HAT 2"
     misc_feature    2331..2435
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: HAT 3"
     misc_feature    2991..3089
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: HAT 4"
     misc_feature    3258..3362
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q80XC6.3);
                     Region: HAT 5"
     exon            115..223
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            224..457
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            458..616
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            617..1067
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1068..1473
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1474..1607
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1608..1728
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1729..1904
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1905..2291
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2292..3217
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3218..3356
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3357..3428
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3429..3710
                     /gene="Nrde2"
                     /gene_synonym="6720454P05Rik"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ctccagacggcgccatttctgaggcaggagtggtagtgcggcctgtgatcatggcgctgttcccggcttttgcggacgtaagtgaggcctccggtgatggggcattcaggaaagagttagattggctgagcaacccaagctttcgtgttggaaatctaacttctctgagccgacaaactgaagaggtcacagcccttgcttctgaagggtcaccaccgccaaggagtcctctgaagtcagagctctcaggtgagagcaacactagcgagaagctcgcacagacaagcaggaagaagaagaaggagaaaaagaagagacggaagcatcagcaccacaggaaaaccaagaggaggcacgagcagttgagcagcagcggctctgagtcagacacagaggctgggaaggacagggcttcccggagcatcagggacgaccagaaggaagccgagaaaccctgtcagggaagcaatgcggctgctgctgttgctgctgctgctggacatcggtccatttggctggaagatattcacgatctgaccgacgtcttcaggactgataagaagccagatcctgccaactgggagtataaatctctgtatcgtggggatatagcaaggtacaagaggaagggagactcctgcctgggtatcaatcctaagaaacagtgtatatcttgggaaggggcttctgcagcaaagaagcactcacacaggcacctggagcgctattttaccaagaagaatgtggggttaatgagaacagagggcattgctgtgtgcagtaaccccgagcctgcctcctccgagcccgtcacattcatcccagtgaaggactctgctgaggcagctactcctgttacatcatggctgaatcctctggggatttatgatcagtctaccacacagtggttacaaggacagggtccagcagagcaagagtcaaagcagccggactcgcaacaggacagggagaatgctgctctcaaggccagagtggaagagtttaacagaagggttcgggagaatccttgggacacgcaactatggatggcgtttgtggctttccaggacgaggtcatgaggagtcctggcatctatgcccttggggaaggagaacaggagaagcacaggaagtccctgaagctcctcctggagaagaagctggctgtgctggagcgggccatcgagagcaacccaggcagcgtggagctgaagcttgccaagctgcagctgtgctcagagttctgggagcccagtgcgctggccaaggagtggcagaagctcctcttcctgcaccccaacaacacaagcctgtggcagcgctatctctccttttgccagagccagtttggtaccttttctgtgtccaaactccacagtctgtatggcaagtgcttgagtaccttgtctgctgttaaagatggcagcatgctatcccaccctgtgttgccgggcaccgaggaggccatgtttgggctctttcttcagcagtgccactttctacggcaggctggccactcagagaaggtcatctctttgttccaggccatggttgacttcaccttcttcaagcctgacagtgtgaaagagctgcctactaaagtacaggtggaattctttgagcccttctgggacagcggagaaccacgcgttggggagaagggagcccgaggctggcgggcgtggatgcaccaacaggagcgaggtggctgggtgctcatcaccccagatgaggatgacgaggagcccgaagaggaggaccaggagataaaagacaagaccctgccccggtggcagatctggcttgctgttgagcgttctcgagaccagaggcactggcgtccctggcgccctgataagaccaagaagcaaacggaggaagactgtgaggaccctgagagacaggtgctgtttgatgacattgggcaatctttgatcagactttccagcccagaccttcagttccagctcatccaggcctttctgcagttcctgggcgtgccttccggcttcctgcccccagcctcctgcctttacctggccatggacgagagcagcatctttgagagtgaactttatgatgaaaagcccctgacttacttcaacccttccttttcgggcattagctgtgtcggctccatggaacagttgggtcgccctcgctggaccaaaggtcacaaccgagagggcgaggagtttgtccgcaatgtcttccacctggtgctgcctttgctcgcaggcaagcagaagtcccagctcagcctctcctggttacggtacgagattgcaaaggtcatttggtgtctacacactaaaaagaagcgattgaagtctcagggaaagagctgcaaaaaactagccaagaatctcctcaaggagccagaaaaccgcaacaacttctgcctctggaagcagtatgcacacctggagtggttgctcggtaacacagaggatgccagaaaagtgttcgacacagcactcagcatggcaggcagcagcgagctgaaggaccgtgaactctgcgagctcagtctgctctatgccgagctggagatggaactgtcgccggactcgagaggagccaccacaggccgagcggtccacatattaacacggctgacggagagcagtccctacgggccctacacggggcaggtctcgtccacccaggtgctgaaagctcggaaggcttacgagctcgcgctgcaggactgcctgggccagagctgtgcctccagcccagctcctgcagaggccttggactgcctgggtagcttggtccgatgctttatgctcttccagtatttgactgtgggcattgatgctgctgtgcagatatacggaagggtgtttgccaagctgaagggctctgctcgcttagaagacccagggccagaggacagcaccagctcccagagtttgaccaatgtgctcgaggctgtcagcatgatgcacacaagcctgctgcgattccacatgaacgtttgtgtttaccctctggctccactccgagagaccctctccgatgctttaaagctgtatccgggcaaccaggttctttggagggcttatgtacagattcagaataagtcccacagtgctaacaagaccagaaggttctttgacacagttactaggtctgccaaacatttggagccttggctatttgcaatcgaagctgagaagctgaggaaaaagctagtggaatctgttcagagggtaggaggcagagaggtccatgcaacaatccccgagactggccttacgcatcgcatcagagctttgtttgaaaatgcgattcggagcgacaagggcaaccagtgtcccctactgtggaggatgtatttgaattttttggtttccttaggaaacaaagaaagaagcaaaggcgtgttctacaaggccctccagagctgtccttgggcaaaggtgctatacatggacgccatggagtatttcccagacgagctgcaggagatcctggacgtgatgaccgagaaggagctccgtgtgcgcctgccccttgaggagctggagctgctgctggaggattagtgtgcagccaggcctgggccagcctgcagagcccaaagccgcagctgtgcaggctccactgtcctgctggggttggacgtattgacttacatattatatatgtgatctctatgtacaagtggagtcgtgccagtgataaaccttttgtggttgaca

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