2024-09-28 09:30:00, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001377383 3562 bp mRNA linear ROD 09-JUN-2024 DEFINITION Mus musculus nrde-2 necessary for RNA interference, domain containing (Nrde2), transcript variant 3, mRNA. ACCESSION NM_001377383 VERSION NM_001377383.1 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 3562) AUTHORS Flemr,M., Schwaiger,M., Hess,D., Iesmantavicius,V., Ahel,J., Tuck,A.C., 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 3562) AUTHORS Sharov,A.A., Piao,Y., Matoba,R., Dudekula,D.B., Qian,Y., VanBuren,V., Falco,G., Martin,P.R., Stagg,C.A., Bassey,U.C., Wang,Y., Carter,M.G., Hamatani,T., Aiba,K., Akutsu,H., Sharova,L., Tanaka,T.S., Kimber,W.L., Yoshikawa,T., Jaradat,S.A., Pantano,S., Nagaraja,R., Boheler,K.R., Taub,D., Hodes,R.J., Longo,D.L., Schlessinger,D., Keller,J., Klotz,E., Kelsoe,G., Umezawa,A., Vescovi,A.L., Rossant,J., Kunath,T., Hogan,B.L., Curci,A., D'Urso,M., Kelso,J., Hide,W. and Ko,M.S. TITLE Transcriptome analysis of mouse stem cells and early embryos JOURNAL PLoS Biol 1 (3), E74 (2003) PUBMED 14691545 REFERENCE 3 (bases 1 to 3562) 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 AC166349.4. ##Evidence-Data-START## Transcript exon combination :: SRR1660819.144453.1, ERR3363658.3019714.1 [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 1-110 AC166349.4 130627-130736 c 111-234 AC166349.4 122298-122421 c 235-468 AC166349.4 120904-121137 c 469-919 AC166349.4 114826-115276 c 920-1325 AC166349.4 112980-113385 c 1326-1459 AC166349.4 111092-111225 c 1460-1580 AC166349.4 108745-108865 c 1581-1756 AC166349.4 105444-105619 c 1757-2143 AC166349.4 103238-103624 c 2144-3069 AC166349.4 101445-102370 c 3070-3208 AC166349.4 100382-100520 c 3209-3280 AC166349.4 97288-97359 c 3281-3562 AC166349.4 96537-96818 c FEATURES Location/Qualifiers source 1..3562 /organism="Mus musculus" /mol_type="mRNA" /strain="C57BL/6" /db_xref="taxon:10090" /chromosome="12" /map="12" gene 1..3562 /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..110 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" CDS 47..3406 /gene="Nrde2" /gene_synonym="6720454P05Rik" /note="isoform c is encoded by transcript variant 3; UPF0614 protein C14orf102 homolog; protein NRDE2 homolog; nuclear exosome regulator NRDE2" /codon_start=1 /product="nuclear exosome regulator NRDE2 isoform c" /protein_id="NP_001364312.1" /db_xref="GeneID:217827" /db_xref="MGI:MGI:2670969" /translation="
MALFPAFADVSEASGDGAFRKELDWLSNPSFRVGNLTSLSRQTEEVTALASEGSPPPRYSFIRSPLKSELSGESNTSEKLAQTSRKKKKEKKKRRKHQHHRKTKRRHEQLSSSGSESDTEAGKDRASRSIRDDQKEAEKPWYKRKGDSCLGINPKKQCISWEGASAAKKHSHRHLERYFTKKNVGLMRTEGIAVCSNPEPASSEPVTFIPVKDSAEAATPVTSWLNPLGIYDQSTTQWLQGQGPAEQESKQPDSQQDRENAALKARVEEFNRRVRENPWDTQLWMAFVAFQDEVMRSPGIYALGEGEQEKHRKSLKLLLEKKLAVLERAIESNPGSVELKLAKLQLCSEFWEPSALAKEWQKLLFLHPNNTSLWQRYLSFCQSQFGTFSVSKLHSLYGKCLSTLSAVKDGSMLSHPVLPGTEEAMFGLFLQQCHFLRQAGHSEKVISLFQAMVDFTFFKPDSVKELPTKVQVEFFEPFWDSGEPRVGEKGARGWRAWMHQQERGGWVLITPDEDDEEPEEEDQEIKDKTLPRWQIWLAVERSRDQRHWRPWRPDKTKKQTEEDCEDPERQVLFDDIGQSLIRLSSPDLQFQLIQAFLQFLGVPSGFLPPASCLYLAMDESSIFESELYDEKPLTYFNPSFSGISCVGSMEQLGRPRWTKGHNREGEEFVRNVFHLVLPLLAGKQKSQLSLSWLRYEIAKVIWCLHTKKKRLKSQGKSCKKLAKNLLKEPENRNNFCLWKQYAHLEWLLGNTEDARKVFDTALSMAGSSELKDRELCELSLLYAELEMELSPDSRGATTGRAVHILTRLTESSPYGPYTGQVSSTQVLKARKAYELALQDCLGQSCASSPAPAEALDCLGSLVRCFMLFQYLTVGIDAAVQIYGRVFAKLKGSARLEDPGPEDSTSSQSLTNVLEAVSMMHTSLLRFHMNVCVYPLAPLRETLSDALKLYPGNQVLWRAYVQIQNKSHSANKTRRFFDTVTRSAKHLEPWLFAIEAEKLRKKLVESVQRVGGREVHATIPETGLTHRIRALFENAIRSDKGNQCPLLWRMYLNFLVSLGNKERSKGVFYKALQSCPWAKVLYMDAMEYFPDELQEILDVMTEKELRVRLPLEELELLLED"
misc_feature <470..685 /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 851..1849 /gene="Nrde2" /gene_synonym="6720454P05Rik" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:462472" exon 111..234 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 235..468 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 469..919 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 920..1325 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 1326..1459 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 1460..1580 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 1581..1756 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 1757..2143 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 2144..3069 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 3070..3208 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 3209..3280 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" exon 3281..3562 /gene="Nrde2" /gene_synonym="6720454P05Rik" /inference="alignment:Splign:2.1.0" regulatory 3541..3546 /regulatory_class="polyA_signal_sequence" /gene="Nrde2" /gene_synonym="6720454P05Rik" /note="hexamer: GATAAA" polyA_site 3560 /gene="Nrde2" /gene_synonym="6720454P05Rik" /note="major polyA site" ORIGIN
agacggcgccatttctgaggcaggagtggtagtgcggcctgtgatcatggcgctgttcccggcttttgcggacgtaagtgaggcctccggtgatggggcattcaggaaagagttagattggctgagcaacccaagctttcgtgttggaaatctaacttctctgagccgacaaactgaagaggtcacagcccttgcttctgaagggtcaccaccgccaaggtactcttttatcaggagtcctctgaagtcagagctctcaggtgagagcaacactagcgagaagctcgcacagacaagcaggaagaagaagaaggagaaaaagaagagacggaagcatcagcaccacaggaaaaccaagaggaggcacgagcagttgagcagcagcggctctgagtcagacacagaggctgggaaggacagggcttcccggagcatcagggacgaccagaaggaagccgagaaaccctggtacaagaggaagggagactcctgcctgggtatcaatcctaagaaacagtgtatatcttgggaaggggcttctgcagcaaagaagcactcacacaggcacctggagcgctattttaccaagaagaatgtggggttaatgagaacagagggcattgctgtgtgcagtaaccccgagcctgcctcctccgagcccgtcacattcatcccagtgaaggactctgctgaggcagctactcctgttacatcatggctgaatcctctggggatttatgatcagtctaccacacagtggttacaaggacagggtccagcagagcaagagtcaaagcagccggactcgcaacaggacagggagaatgctgctctcaaggccagagtggaagagtttaacagaagggttcgggagaatccttgggacacgcaactatggatggcgtttgtggctttccaggacgaggtcatgaggagtcctggcatctatgcccttggggaaggagaacaggagaagcacaggaagtccctgaagctcctcctggagaagaagctggctgtgctggagcgggccatcgagagcaacccaggcagcgtggagctgaagcttgccaagctgcagctgtgctcagagttctgggagcccagtgcgctggccaaggagtggcagaagctcctcttcctgcaccccaacaacacaagcctgtggcagcgctatctctccttttgccagagccagtttggtaccttttctgtgtccaaactccacagtctgtatggcaagtgcttgagtaccttgtctgctgttaaagatggcagcatgctatcccaccctgtgttgccgggcaccgaggaggccatgtttgggctctttcttcagcagtgccactttctacggcaggctggccactcagagaaggtcatctctttgttccaggccatggttgacttcaccttcttcaagcctgacagtgtgaaagagctgcctactaaagtacaggtggaattctttgagcccttctgggacagcggagaaccacgcgttggggagaagggagcccgaggctggcgggcgtggatgcaccaacaggagcgaggtggctgggtgctcatcaccccagatgaggatgacgaggagcccgaagaggaggaccaggagataaaagacaagaccctgccccggtggcagatctggcttgctgttgagcgttctcgagaccagaggcactggcgtccctggcgccctgataagaccaagaagcaaacggaggaagactgtgaggaccctgagagacaggtgctgtttgatgacattgggcaatctttgatcagactttccagcccagaccttcagttccagctcatccaggcctttctgcagttcctgggcgtgccttccggcttcctgcccccagcctcctgcctttacctggccatggacgagagcagcatctttgagagtgaactttatgatgaaaagcccctgacttacttcaacccttccttttcgggcattagctgtgtcggctccatggaacagttgggtcgccctcgctggaccaaaggtcacaaccgagagggcgaggagtttgtccgcaatgtcttccacctggtgctgcctttgctcgcaggcaagcagaagtcccagctcagcctctcctggttacggtacgagattgcaaaggtcatttggtgtctacacactaaaaagaagcgattgaagtctcagggaaagagctgcaaaaaactagccaagaatctcctcaaggagccagaaaaccgcaacaacttctgcctctggaagcagtatgcacacctggagtggttgctcggtaacacagaggatgccagaaaagtgttcgacacagcactcagcatggcaggcagcagcgagctgaaggaccgtgaactctgcgagctcagtctgctctatgccgagctggagatggaactgtcgccggactcgagaggagccaccacaggccgagcggtccacatattaacacggctgacggagagcagtccctacgggccctacacggggcaggtctcgtccacccaggtgctgaaagctcggaaggcttacgagctcgcgctgcaggactgcctgggccagagctgtgcctccagcccagctcctgcagaggccttggactgcctgggtagcttggtccgatgctttatgctcttccagtatttgactgtgggcattgatgctgctgtgcagatatacggaagggtgtttgccaagctgaagggctctgctcgcttagaagacccagggccagaggacagcaccagctcccagagtttgaccaatgtgctcgaggctgtcagcatgatgcacacaagcctgctgcgattccacatgaacgtttgtgtttaccctctggctccactccgagagaccctctccgatgctttaaagctgtatccgggcaaccaggttctttggagggcttatgtacagattcagaataagtcccacagtgctaacaagaccagaaggttctttgacacagttactaggtctgccaaacatttggagccttggctatttgcaatcgaagctgagaagctgaggaaaaagctagtggaatctgttcagagggtaggaggcagagaggtccatgcaacaatccccgagactggccttacgcatcgcatcagagctttgtttgaaaatgcgattcggagcgacaagggcaaccagtgtcccctactgtggaggatgtatttgaattttttggtttccttaggaaacaaagaaagaagcaaaggcgtgttctacaaggccctccagagctgtccttgggcaaaggtgctatacatggacgccatggagtatttcccagacgagctgcaggagatcctggacgtgatgaccgagaaggagctccgtgtgcgcctgccccttgaggagctggagctgctgctggaggattagtgtgcagccaggcctgggccagcctgcagagcccaaagccgcagctgtgcaggctccactgtcctgctggggttggacgtattgacttacatattatatatgtgatctctatgtacaagtggagtcgtgccagtgataaaccttttgtggttgaca
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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