2024-05-04 17:41:48, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_039098324 3671 bp mRNA linear ROD 11-JUN-2023 DEFINITION PREDICTED: Rattus norvegicus zinc finger protein 729-like (LOC102548633), transcript variant X2, mRNA. ACCESSION XM_039098324 VERSION XM_039098324.1 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..3671 /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..3671 /gene="LOC102548633" /note="zinc finger protein 729-like; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 long SRA reads, 10 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 12 samples with support for all annotated introns" /db_xref="GeneID:102548633" /db_xref="RGD:7713719" CDS 833..2986 /gene="LOC102548633" /codon_start=1 /product="zinc finger protein 431-like isoform X2" /protein_id="XP_038954252.1" /db_xref="GeneID:102548633" /db_xref="RGD:7713719" /translation="
MDALTYDDVHVNFTREEWALLDPSQKSLYKDVMQETYRNLTAIGYNWEDHSIEEHCQSFRRHERHERCHTGEKTSENTQCGKAFAQHSHLQRHKSTHTGEKLYECKPRDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCNLGRHKLIHTGRKSYKCNQCGKAFAQHSHLKTHGITHTGEKPYECDQCGKAFAYHSSLQVHKRIHTGEKPYECDWYGKAFVDQNDLKRHERIHTGEKPYKCNECDKAFGNHRNFRLHKMMHAGEKLYKCNECGKAFSQISHLQTHKSTHTREELYECKQCGKAFTCHNELQSHKRIHTGEKSYECNQCGKVFKSHRYLQVHKTIHTGEKPYVCDQCGKAFAHGPLRWHKIMHTRKKTYKCNQCGKAFARHSHLKTHGVTHTGEKPYKCDQCGKAFASHSYLQVHKRIHTGEKPYECDQCGKAFTSHSYLQVHKRIHTGEKPYVCDQCGKAFAQLSHLQVHGITHTGEKPYKCAQCGKAFASHSYLQVHKRIHTGENLYECNQCGKAFASHSPLQVHKRIHTGEKPYVCDQCGKDFVVQSDLKRHKRTHTGEKPYKCNECGKAFVRNGSLRTHKVIHTGEKPYKCNECGKAFVWNGSLRTHKVIHTGEKPYKCNECGKAFACNTSLRTHKAIHTGVKRFKCKQCGKAFVGQNYLKKHERIHTGEKLYKCNECGKAFVFDSSLRKHKAVHTGVKP"
misc_feature 842..964 /gene="LOC102548633" /note="KRAB box; Region: KRAB; pfam01352" /db_xref="CDD:426216" misc_feature <1025..1531 /gene="LOC102548633" /note="FOG: Zn-finger [General function prediction only]; Region: COG5048" /db_xref="CDD:227381" misc_feature 1064..1207 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1229..1291 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature order(1229..1231,1238..1240,1277..1279,1289..1291) /gene="LOC102548633" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:275368" misc_feature 1301..2431 /gene="LOC102548633" /note="FOG: Zn-finger [General function prediction only]; Region: COG5048" /db_xref="CDD:227381" misc_feature 1313..1375 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature order(1313..1315,1322..1324,1361..1363,1373..1375) /gene="LOC102548633" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:275368" misc_feature order(1328..1330,1334..1336,1340..1342,1346..1351, 1358..1363,1370..1372,1412..1414,1418..1420,1430..1435, 1442..1447,1454..1456,1496..1498,1502..1504,1508..1510, 1514..1519,1526..1531,1538..1540) /gene="LOC102548633" /note="putative nucleic acid binding site [nucleotide binding]; other site" /db_xref="CDD:275368" misc_feature 1397..1459 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1481..1543 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1565..1627 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1649..1711 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature order(1649..1651,1658..1660,1697..1699,1709..1711) /gene="LOC102548633" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:275368" misc_feature order(1664..1666,1670..1672,1676..1678,1682..1687, 1694..1699,1706..1708,1748..1750,1754..1756,1766..1771, 1778..1783,1790..1792,1832..1834,1838..1840,1844..1846, 1850..1855,1862..1867,1874..1876) /gene="LOC102548633" /note="putative nucleic acid binding site [nucleotide binding]; other site" /db_xref="CDD:275368" misc_feature 1733..1795 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1817..1879 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 1982..2044 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature order(1982..1984,1991..1993,2030..2032,2042..2044) /gene="LOC102548633" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:275368" misc_feature order(1997..1999,2003..2005,2009..2011,2015..2020, 2027..2032,2039..2041,2081..2083,2087..2089,2099..2104, 2111..2116,2123..2125,2165..2167,2171..2173,2177..2179, 2183..2188,2195..2200,2207..2209) /gene="LOC102548633" /note="putative nucleic acid binding site [nucleotide binding]; other site" /db_xref="CDD:275368" misc_feature 2054..>2983 /gene="LOC102548633" /note="FOG: Zn-finger [General function prediction only]; Region: COG5048" /db_xref="CDD:227381" misc_feature 2066..2128 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2150..2212 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2234..2296 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2318..2380 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2402..2464 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature order(2402..2404,2411..2413,2450..2452,2462..2464) /gene="LOC102548633" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:275368" misc_feature order(2417..2419,2423..2425,2429..2431,2435..2440, 2447..2452,2459..2461,2501..2503,2507..2509,2519..2524, 2531..2536,2543..2545,2585..2587,2591..2593,2597..2599, 2603..2608,2615..2620,2627..2629) /gene="LOC102548633" /note="putative nucleic acid binding site [nucleotide binding]; other site" /db_xref="CDD:275368" misc_feature 2486..2548 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2570..2632 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2654..2716 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2738..2800 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2822..2884 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" misc_feature 2906..2968 /gene="LOC102548633" /note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn finger" /db_xref="CDD:275368" ORIGIN
gaagagcttctagggaagggaaaacttggcccctgcgctgtaaagttcaaggtacaaggtggggtatgctagacacgccctgttacaggtggggactgaggagtgctgggagaacctggaggcccagacagctttggtgtgttaaatatatgaaggtcagctgattgtcgggtttgaatcccaacagccacaaaacaaaactcttgtttcctcaaatctctctttaattgttaatatcttggccacccttccacttgtgggacagattaatgaccccactgcaagttgagtatgggggttatgcaagctgtataccttgattccaggagaagaaagggaaagagcttactgagttttgtgggctgagttcaggttgaagtgaggacctggtgagcacagggtcaccgcccacaaaagggaggaggaagcggctgagcggtggtaggtggcctggtgggtacttcctagggctgggcggggagacagatgagaacgctattggaggacaggcacaagtgctactgaaatgcaaatccctgtagatctggaaatggtctggccctgggcttgaagcttaggccgagagctgtgtatcctcactgtatcttcagctcactctaaccattacggaggtgctcaagtcactcaagactactggccaatcagagtcttcactggaggagccaatcagaagagaaggcgggcatttccgtgtgccttgttgcaggattcgcttagtggccaagccttcttaaatggtcctggctgctgtgctctgtgtccctcggttggattctgtgaggcatgctcaggcaagctccaaagttgcgacatggacgcattaacctatgatgatgtacatgtgaacttcactcgagaagaatgggctttgctggatccttcacagaagagtctctacaaagatgtgatgcaggagacctataggaacctcactgctataggttacaattgggaagaccatagtattgaagaacattgtcaaagtttcagaagacatgaaaggcatgaaagatgtcatactggagagaaaacctctgaaaatactcagtgtggtaaagcctttgcacaacatagtcatctccaaagacataagagcacacatactggagagaaactctatgaatgtaagccacgtgataaagcctttacatacgattctcagcttcaaactcttgaaaggattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtaatcttggaaggcataaactaatacatactggaagaaaatcctacaaatgcaatcagtgtggtaaagcctttgcacaacacagtcatctcaaaacgcatggaataacacatactggagagaaaccttacgaatgtgatcagtgtggtaaagcctttgcatatcatagttctctccaagtacataaaagaatacatactggagagaagccctatgaatgtgattggtatggtaaagcctttgtagatcagaatgatcttaaaaggcatgaaagaattcatactggagagaaaccctacaaatgtaatgaatgtgataaagcctttggaaatcaccgtaattttcgactgcataaaatgatgcatgctggagaaaaactctacaaatgcaatgaatgtggtaaagccttttcacaaatcagtcatctccaaacacataaaagcacacatactagagaggaactctatgaatgtaaacaatgtggtaaagcctttacatgccataatgaacttcaaagtcataaaaggattcatactggagagaaatcctatgaatgcaatcaatgtggtaaagtctttaaatctcatcgttatctccaagtacataaaacaatacatactggagagaagccctatgtgtgtgatcaatgtggtaaagcctttgcacatggtcctcttagatggcataaaataatgcatactaggaaaaaaacctacaaatgcaatcagtgtggtaaagcctttgcacgacacagccatctcaaaacgcatggagtaacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagccctatgaatgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagccctatgtatgcgaccaatgtggtaaagcctttgcacaactcagtcatctccaagttcatggaataacacatactggagagaaaccttacaagtgtgctcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaatctctatgaatgtaatcaatgtggtaaagcctttgcatctcatagtcctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttcagagtgatcttaaaagacataaaagaacacatactggcgagaaaccttacaaatgtaatgaatgtggtaaagcctttgtacggaatggtagtctccgaacacataaagtaatacatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgtatggaatggtagtctccgaacacataaagtaatacatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacgtttcaaatgtaagcaatgtggtaaagcctttgtaggtcagaattaccttaaaaagcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtttttgattctagtctccgaaaacataaagcagtacatactggagtgaaaccttaagaatgtaagcaatgtggtaagcctttgtaggtcagaatgaccttaaaaagcatgaaagaattcatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgtatgtaatgctagtctccgaaaacataaagcaacacatactagagtgaaaccttatgattgtaagcaatttagtaagttctttgcctctcatgatcaacttcgacaacatgaaagaattgatacaggagagaaaccttaaaatgtagtcaatgtggtaaagccttttcacaatcaagccacctccaactacataaaagaacacatacatactaaagagtaaccttatgaatgtaaccaatgtaataaagcctttactgtgatcttcaaaggtatggtggtttaaatatacttggcccattgcaagtggcagtgttaggaggtatggcctttttggagtagatgtggactttgaggaagtatgtcactgtgggggagggtgggctttgagtccccatgcttaaactctacccagggcagaagagtcttctggctgccttctgatcaagatgtagaactctctcctccagcagcatgtctgcttggacactgacattccttccaccttgataatagactgaacctctgaatctgtatacctcccctccccccaattaaatgtcctttctaagagtt
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
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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