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2024-03-28 22:26:47, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_039098301            2147 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus sperm motility kinase X-like
            (LOC103693496), transcript variant X7, mRNA.
ACCESSION   XM_039098301
VERSION     XM_039098301.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051336.1) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2147
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /sex="male"
                     /tissue_type="kidney"
                     /country="USA: Wisconsin, Milwaukee, Medical College of
                     Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..2147
                     /gene="LOC103693496"
                     /note="sperm motility kinase X-like; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 4 long
                     SRA reads, 4 Proteins, and 85% coverage of the annotated
                     genomic feature by RNAseq alignments, including 17 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:103693496"
                     /db_xref="RGD:9090555"
     CDS             190..2010
                     /gene="LOC103693496"
                     /codon_start=1
                     /product="zinc finger protein 431-like isoform X4"
                     /protein_id="XP_038954229.1"
                     /db_xref="GeneID:103693496"
                     /db_xref="RGD:9090555"
                     /translation="
MDALTYDDVHVNFTQEEWALLDPSQKSLYKDVMQETYRNLTAIGYNWEDHTIEEHCQSFRRHGRHERCHTGEKPSENTQCGKAFAQHSHLQRHKSTHTGEKLYECKPRDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCTLGRHKLIHTGRKSYKCNQCGKAFARHSHLKTHGITHTGEKPYECDQCGKAFAYHSYLQVHKRIHTGEKPYECNQCGKAFVGQNDLKRHERIHTGEKPYKCNECDKGFGHHRNFRMHKMMHAGEKPYKCNQCGKAFSQNSHLQTHKSTHTGEKPYKCDQCGKAFTSHSYLQVHKRIHTGEKLCECEQCGKAFASHSYLKVHKRIHTGENLYECNQCGKTFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSPLQVHKRIHTGEKPYVCDQCGKDFVVQSDLKRHKRTHTGEKPYKCNECGKAFVGQNDLKKHKRKHTGEKPYKCNECGKAFVWNGSLRTHKVIHSGEKPYKCNECGKAFACNTSLRTHKAIHTGVKPFKCKHCGKAFVGQNDLKRHERIHTGEKLYKCNECGKAFVFDSSLRKYKAVHTGVKP"
     misc_feature    199..321
                     /gene="LOC103693496"
                     /note="KRAB box; Region: KRAB; pfam01352"
                     /db_xref="CDD:426216"
     misc_feature    <382..888
                     /gene="LOC103693496"
                     /note="FOG: Zn-finger [General function prediction only];
                     Region: COG5048"
                     /db_xref="CDD:227381"
     misc_feature    421..564
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    586..648
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(586..588,595..597,634..636,646..648)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    658..1965
                     /gene="LOC103693496"
                     /note="FOG: Zn-finger [General function prediction only];
                     Region: COG5048"
                     /db_xref="CDD:227381"
     misc_feature    670..732
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(670..672,679..681,718..720,730..732)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(685..687,691..693,697..699,703..708,715..720,
                     727..729,769..771,775..777,787..792,799..804,811..813,
                     853..855,859..861,865..867,871..876,883..888,895..897)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    754..816
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    838..900
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    922..984
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(922..924,931..933,970..972,982..984)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1006..1068
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1006..1008,1015..1017,1054..1056,1066..1068)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(1021..1023,1027..1029,1033..1035,1039..1044,
                     1051..1056,1063..1065,1105..1107,1111..1113,1123..1128,
                     1135..1140,1147..1149,1189..1191,1195..1197,1201..1203,
                     1207..1212,1219..1224,1231..1233)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1090..1152
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1174..1236
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1258..1320
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1258..1260,1267..1269,1306..1308,1318..1320)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(1273..1275,1279..1281,1285..1287,1291..1296,
                     1303..1308,1315..1317,1357..1359,1363..1365,1375..1380,
                     1387..1392,1399..1401,1441..1443,1447..1449,1453..1455,
                     1459..1464,1471..1476,1483..1485)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1342..1404
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1426..1488
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1510..1572
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1510..1512,1519..1521,1558..1560,1570..1572)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(1525..1527,1531..1533,1537..1539,1543..1548,
                     1555..1560,1567..1569,1609..1611,1615..1617,1627..1632,
                     1639..1644,1651..1653,1693..1695,1699..1701,1705..1707,
                     1711..1716,1723..1728,1735..1737)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1594..1656
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1678..1740
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1762..1824
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1846..1908
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1930..1992
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
ORIGIN      
actcaagactactggccaatcagagtcttcactggacgtgccaatcagaatagaaggcgggcatttccgggtgccttgttgcaggattcgcttagttttcaagccttcttaaatggtcctggttgctatgctctgtgtccctcggttggattctgtgaggcatgctcaggcaagctccaaagttgcgacatggatgcattgacctatgatgatgtacatgtgaacttcactcaagaagaatgggctttgctggatccttcacagaagagtctttacaaagatgtgatgcaggagacctataggaacctcactgctataggttacaattgggaagaccatactattgaagaacattgtcaaagtttcagaagacatggaaggcatgaaagatgtcatactggagagaagccctctgaaaatactcagtgtggtaaagcctttgcacaacatagtcatctccaaagacataagagcacacatactggagagaaactctatgaatgtaagccacgtgataaagcctttacatacgattctcagcttcaaactcttgaaaggattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtactcttggaaggcataaactaatacatactggaagaaaatcctacaaatgcaatcagtgtggtaaagcctttgcacgacacagtcatctcaaaacgcatggaataacacatactggagagaaaccttacgaatgtgatcaatgtggtaaagcctttgcatatcatagttatctccaagtacataaaagaatacatactggagagaagccctatgaatgtaatcaatgtggtaaagcctttgtaggtcagaatgatcttaaaaggcatgaaagaattcatactggagagaaaccctacaaatgtaatgaatgtgataaaggctttggacatcaccgaaattttcgaatgcataaaatgatgcatgctggagaaaaaccctacaaatgcaatcaatgtggtaaagccttttcacaaaacagtcatctccaaacacataaaagcacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgagcaatgtggtaaagcctttgcatctcatagttatctcaaagtacataaaagaatacatactggagagaatctctatgaatgtaatcaatgtggtaaaacctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagttcataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagtcctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttcagagtgatcttaaaagacataaaagaacacatactggtgagaaaccttacaaatgtaatgaatgtggtaaggcctttgtaggtcagaatgatcttaaaaaacataaaagaaaacatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgtatggaatggtagtctccgaacacataaagtaatacatagtggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacctttcaaatgtaagcactgtggtaaagcctttgtaggtcagaatgaccttaaaaggcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaatataaagcagtacatactggagtgaaaccttaagaatgtaagcaatgtggtaaagcctttgtatgtcagaattaccttaaaaagcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaaca
//

by @meso_cacase at DBCLS
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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. [Full Text]