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2024-03-28 22:43:37, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_039098282            3096 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus sperm motility kinase X-like
            (LOC103693496), transcript variant X1, mRNA.
ACCESSION   XM_039098282
VERSION     XM_039098282.1
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..3096
                     /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..3096
                     /gene="LOC103693496"
                     /note="sperm motility kinase X-like; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 4
                     Proteins, and 89% coverage of the annotated genomic
                     feature by RNAseq alignments, including 224 samples with
                     support for all annotated introns"
                     /db_xref="GeneID:103693496"
                     /db_xref="RGD:9090555"
     CDS             1107..2960
                     /gene="LOC103693496"
                     /codon_start=1
                     /product="zinc finger protein 431-like isoform X1"
                     /protein_id="XP_038954210.1"
                     /db_xref="GeneID:103693496"
                     /db_xref="RGD:9090555"
                     /translation="
MVTVVQMYGMFQDALTYDDVHVNFTQEEWALLDPSQKSLYKDVMQETYRNLTAIGYNWEDHTIEEHCQSFRRHGRHERCHTGEKPSENTQCGKAFAQHSHLQRHKSTHTGEKLYECKPRDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCTLGRHKLIHTGRKSYKCNQCGKAFARHSHLKTHGITHTGEKPYECDQCGKAFAYHSYLQVHKRIHTGEKPYECNQCGKAFVGQNDLKRHERIHTGEKPYKCNECDKGFGHHRNFRMHKMMHAGEKPYKCNQCGKAFSQNSHLQTHKSTHTGEKPYKCDQCGKAFTSHSYLQVHKRIHTGEKLCECEQCGKAFASHSYLKVHKRIHTGENLYECNQCGKTFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSPLQVHKRIHTGEKPYVCDQCGKDFVVQSDLKRHKRTHTGEKPYKCNECGKAFVGQNDLKKHKRKHTGEKPYKCNECGKAFVWNGSLRTHKVIHSGEKPYKCNECGKAFACNTSLRTHKAIHTGVKPFKCKHCGKAFVGQNDLKRHERIHTGEKLYKCNECGKAFVFDSSLRKYKAVHTGVKP"
     misc_feature    1149..1271
                     /gene="LOC103693496"
                     /note="KRAB box; Region: KRAB; pfam01352"
                     /db_xref="CDD:426216"
     misc_feature    <1332..1838
                     /gene="LOC103693496"
                     /note="FOG: Zn-finger [General function prediction only];
                     Region: COG5048"
                     /db_xref="CDD:227381"
     misc_feature    1371..1514
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1536..1598
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1536..1538,1545..1547,1584..1586,1596..1598)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1608..2915
                     /gene="LOC103693496"
                     /note="FOG: Zn-finger [General function prediction only];
                     Region: COG5048"
                     /db_xref="CDD:227381"
     misc_feature    1620..1682
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1620..1622,1629..1631,1668..1670,1680..1682)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(1635..1637,1641..1643,1647..1649,1653..1658,
                     1665..1670,1677..1679,1719..1721,1725..1727,1737..1742,
                     1749..1754,1761..1763,1803..1805,1809..1811,1815..1817,
                     1821..1826,1833..1838,1845..1847)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1704..1766
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1788..1850
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    1872..1934
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1872..1874,1881..1883,1920..1922,1932..1934)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    1956..2018
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(1956..1958,1965..1967,2004..2006,2016..2018)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(1971..1973,1977..1979,1983..1985,1989..1994,
                     2001..2006,2013..2015,2055..2057,2061..2063,2073..2078,
                     2085..2090,2097..2099,2139..2141,2145..2147,2151..2153,
                     2157..2162,2169..2174,2181..2183)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    2040..2102
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2124..2186
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2208..2270
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(2208..2210,2217..2219,2256..2258,2268..2270)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(2223..2225,2229..2231,2235..2237,2241..2246,
                     2253..2258,2265..2267,2307..2309,2313..2315,2325..2330,
                     2337..2342,2349..2351,2391..2393,2397..2399,2403..2405,
                     2409..2414,2421..2426,2433..2435)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    2292..2354
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2376..2438
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2460..2522
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    order(2460..2462,2469..2471,2508..2510,2520..2522)
                     /gene="LOC103693496"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    order(2475..2477,2481..2483,2487..2489,2493..2498,
                     2505..2510,2517..2519,2559..2561,2565..2567,2577..2582,
                     2589..2594,2601..2603,2643..2645,2649..2651,2655..2657,
                     2661..2666,2673..2678,2685..2687)
                     /gene="LOC103693496"
                     /note="putative nucleic acid binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:275368"
     misc_feature    2544..2606
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2628..2690
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2712..2774
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2796..2858
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
     misc_feature    2880..2942
                     /gene="LOC103693496"
                     /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
                     finger"
                     /db_xref="CDD:275368"
ORIGIN      
aggacaaagtttctcaatgtagccctggctgtcctgaaagtagctgtttagaacgtggggcctcagatgtaaatggtccacctgcctctggctccagagtgccaggattaaatgtgggccaacatgccccgctttctctttgtttgtttgtttgtttgtttgtttgttcatttttatgttattggctgatggttggactatgggttttggcacatgtcaagcatatgctgctgtgttgatcttcatccatgttatgaattttgaaatttgacagagagcatgttctgtttctcaggatggcatgtattcatgacattcatacatatcattcatgacattcatatgcacatcatgtatgcctaatccccatagtagtcagaaaatggcttcagaattacggaacttggagtaatcaatagttgtgaagctcccttctaactactggcaattgaggccaattatttttaagaccagcaagagctcttcactgctgagccagctcctgtcctatgttgcttatttaggatcaacatttacattgccagtattttcagctatctgtttgtatctgtttcaacattcatccccttttagtaagatctcattactgttacagttaaaactgggacacctcaagattatggaagaagaatacagaagtgcagtgaatgtaattctttgtaggaactctagtaaaaacctctgagtcctttctatctttcttgtttgtttgtttgattgatttttcataggggagacagggtcttaatatgtacctctggctgtcctggatagacctcagatatacctgcctctgcctcctgagtgcttgaattaaagacatgagcctatatgctcacttgatatttttttgcagttagtaattgttcatacaatttctctgtgtgctcaatactgcgcccccctccattaattagcatttctcttgcaaggctatatcctacccaaagagcaaagatatgacagaggtgaaccttattactcagttttcttctaagatgatttcgtaattacattagaacatctgggtcaagaaataagtgggttaagcacaagaagcatacatttacagtgatatcggtatcatggttactgttgtacaaatgtatgggatgtttcaggatgcattgacctatgatgatgtacatgtgaacttcactcaagaagaatgggctttgctggatccttcacagaagagtctttacaaagatgtgatgcaggagacctataggaacctcactgctataggttacaattgggaagaccatactattgaagaacattgtcaaagtttcagaagacatggaaggcatgaaagatgtcatactggagagaagccctctgaaaatactcagtgtggtaaagcctttgcacaacatagtcatctccaaagacataagagcacacatactggagagaaactctatgaatgtaagccacgtgataaagcctttacatacgattctcagcttcaaactcttgaaaggattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtactcttggaaggcataaactaatacatactggaagaaaatcctacaaatgcaatcagtgtggtaaagcctttgcacgacacagtcatctcaaaacgcatggaataacacatactggagagaaaccttacgaatgtgatcaatgtggtaaagcctttgcatatcatagttatctccaagtacataaaagaatacatactggagagaagccctatgaatgtaatcaatgtggtaaagcctttgtaggtcagaatgatcttaaaaggcatgaaagaattcatactggagagaaaccctacaaatgtaatgaatgtgataaaggctttggacatcaccgaaattttcgaatgcataaaatgatgcatgctggagaaaaaccctacaaatgcaatcaatgtggtaaagccttttcacaaaacagtcatctccaaacacataaaagcacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgagcaatgtggtaaagcctttgcatctcatagttatctcaaagtacataaaagaatacatactggagagaatctctatgaatgtaatcaatgtggtaaaacctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagttcataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagtcctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttcagagtgatcttaaaagacataaaagaacacatactggtgagaaaccttacaaatgtaatgaatgtggtaaggcctttgtaggtcagaatgatcttaaaaaacataaaagaaaacatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgtatggaatggtagtctccgaacacataaagtaatacatagtggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacctttcaaatgtaagcactgtggtaaagcctttgtaggtcagaatgaccttaaaaggcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaatataaagcagtacatactggagtgaaaccttaagaatgtaagcaatgtggtaaagcctttgtatgtcagaattaccttaaaaagcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaac
//

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]