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Previous release (v1)
2024-11-01 15:20:41, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS XM_039084905 3120 bp mRNA linear ROD 22-FEB-2024
DEFINITION PREDICTED: Rattus norvegicus zinc finger protein 431-like
(LOC120094815), transcript variant X6, mRNA.
ACCESSION XM_039084905
VERSION XM_039084905.2
DBLINK BioProject: PRJNA1074393
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_086027) annotated using gene prediction method: Gnomon,
supported by mRNA evidence.
Also see:
Documentation of NCBI's Annotation Process
On Feb 22, 2024 this sequence version replaced XM_039084905.1.
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Status :: Full annotation
Annotation Name :: GCF_036323735.1-RS_2024_02
Annotation Pipeline :: NCBI eukaryotic genome annotation
pipeline
Annotation Software Version :: 10.2
Annotation Method :: Best-placed RefSeq; Gnomon;
cmsearch; tRNAscan-SE
Features Annotated :: Gene; mRNA; CDS; ncRNA
Annotation Date :: 02/09/2024
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..3120
/organism="Rattus norvegicus"
/mol_type="mRNA"
/strain="BN/NHsdMcwi"
/bio_material="RGD 61498"
/db_xref="taxon:10116"
/chromosome="9"
/sex="male"
/tissue_type="kidney, spleen, liver"
/geo_loc_name="USA: Wisconsin, Milwaukee"
/lat_lon="43.05 N 88.04 W"
/collected_by="Rebecca Schilling, Melinda Dwinell"
gene 1..3120
/gene="LOC120094815"
/note="zinc finger protein 431-like; Derived by automated
computational analysis using gene prediction method:
Gnomon. Supporting evidence includes similarity to: 1
mRNA, 56 long SRA reads, 4 Proteins"
/db_xref="GeneID:120094815"
/db_xref="RGD:41247165"
CDS 360..2759
/gene="LOC120094815"
/codon_start=1
/product="zinc finger protein 431-like isoform X3"
/protein_id="XP_038940833.1"
/db_xref="GeneID:120094815"
/db_xref="RGD:41247165"
/translation="
MDALTYDDVHVNFTREEWALLDPSQKSLYKDVMLETYRNLTAIGYNWEDHTIDEHCQSFRRHGRHERCHPGEKPSENTQCGKAFAQQSHLQRHKSTHTGEKLYECKPHDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCNLGRHKLIHTGRKSYKYNQCGKDFAGLSHLKTHGITHTGGKPYKCDQCGKAFAYHSSLQVHKRIHTGEKPYVCDQCGKAFAQLGHLQVHGITHTGEKPYKCDQCGKAFAHHSYLQVHKRIHTGEKLCECDQCGKAFLSHSYLQVHKRIHTGENLYECDQCGKAFTSHSYLQVHKRIHTGEKLYECDQCGKAFTSHSYLQVHKRIHTGEKPYVCDQCGKAFARLSYLKTHGITHTGEKPYKCDQCGKAFEHRCNLGSHKLIHTGEKPYKCDQCGKAFSSHSYLQVHKRIHTGEKLCECDQCGKAFSSHSYLQVHKRIHTGQNLYECDQCGKAFASHSYLQVHKRIHTGEKLCECDQCGKAFSSHSYLQVHKRIHTGEKLYECDQCGKAFASHSYLQVHKRIHTGENLYECDQCSKAFASHSYLQVHKRIHTGEKPYVCDWCNKAFAYHSYLQVHKRIHTGEKPYVCDQCGKDFVVPSELKRHKRIHTGEKPYKCNECGKAFVGQNDLKKHRRTHTGEKPYKCNECGKAFVFNFNLRAHKVIHTGEKPYKCSECGKAFACNTSLRTHKAIHTGVKPFECKQCGKAFACNTSLQTHRAIHTGVKPFECKQCGKAFVGQNDLKRHERIHTGEKPYECNECGKAFSQSSQLQLHKRTHTY"
misc_feature 369..491
/gene="LOC120094815"
/note="KRAB box; Region: KRAB; pfam01352"
/db_xref="CDD:460171"
misc_feature 549..1793
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 591..650
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 672..734
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 756..818
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 843..902
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 924..986
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(939..941,945..947,951..953,957..962,969..974,
981..983,1023..1025,1029..1031,1041..1046,1053..1058,
1065..1067,1107..1109,1113..1115,1119..1121,1125..1130,
1137..1142,1149..1151)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 1008..1070
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1092..1154
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1176..1238
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1248..2492
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 1260..1322
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(1275..1277,1281..1283,1287..1289,1293..1298,
1305..1310,1317..1319,1359..1361,1365..1367,1377..1382,
1389..1394,1401..1403,1443..1445,1449..1451,1455..1457,
1461..1466,1473..1478,1485..1487)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 1344..1406
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1428..1490
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1512..1574
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1596..1658
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1680..1742
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1764..1826
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1848..1910
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1932..1994
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2016..2078
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(2031..2033,2037..2039,2043..2045,2049..2054,
2061..2066,2073..2075,2115..2117,2121..2123,2133..2138,
2145..2150,2157..2159,2199..2201,2205..2207,2211..2213,
2217..2222,2229..2234,2241..2243)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 2100..2162
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2184..2246
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2268..2330
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2352..2414
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2436..2498
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2472..2549
/gene="LOC120094815"
/note="Zinc-finger double domain; Region: zf-H2C2_2;
pfam13465"
/db_xref="CDD:463886"
misc_feature 2520..2582
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(2535..2537,2541..2543,2547..2549,2553..2558,
2565..2570,2577..2579,2619..2621,2625..2627,2637..2642,
2649..2654,2661..2663,2703..2705,2709..2711,2715..2717,
2721..2726,2733..2738,2745..2747)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 2592..>2756
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 2604..2666
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2640..2717
/gene="LOC120094815"
/note="Zinc-finger double domain; Region: zf-H2C2_2;
pfam13465"
/db_xref="CDD:463886"
misc_feature 2688..2750
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
polyA_site 3120
/gene="LOC120094815"
/experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN
ctgggcagagacagatgagaaggctattggaggacaggcagaagtgctactgaaatgcaaatccctgtagatcttgaaatggtctggccctggcttgaagcttaggccgagaaaagtgtatcctcactgtatcttcagctcattttaaaccttatggaggtgctcaagtcactcaaactactggccaatcagaatcttcactggacctgccaatcagaagagaaggcggccttttccagggtaccttgttgcaggattcgcttagtagctaagcctacttaaatggtcctggctgctgtgctctgtgtcctgcggttggattctgtcaggcatgctcaggcaagcttcaaagttgcgacatggatgcattgacctatgatgatgtacatgtgaacttcactcgagaagaatgggctttgctggatccttcacagaagagtctctacaaagatgtgatgctggagacctacaggaacctcactgctataggttacaattgggaagaccatactattgatgagcattgtcaaagtttcagaagacatggaaggcatgaaagatgtcatcctggagagaaaccctctgaaaatactcagtgtggtaaagcctttgcacaacagagtcatctccaaagacataaaagcacacatactggagagaaactctatgaatgtaagccacatgataaagcctttacatacgattctcagcttcaaactcttgaaagaattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtaatcttggaaggcataaactaatacatactggaagaaaatcctacaaatacaatcaatgtggtaaagactttgcaggactcagtcatctcaaaacacatggaataacacatactggagggaaaccttacaaatgtgatcaatgtggtaaagcctttgcatatcatagttctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgaccaatgtggtaaagcctttgcacaactcggtcatctccaagttcatggaataacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttgcacatcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagcctttttatctcatagttatctccaagtacataaaagaatacatactggagagaatctctatgaatgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagcctttgctcgactcagttatctcaaaacgcatggaataacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttgaacatcgttgtaatcttggaagtcataaattaatacatactggagagaaaccttacaaatgtgatcaatgtggtaaagccttttcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagccttttcatctcatagttatctccaagtacataaaagaatacatactggacagaatctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagccttttcatctcatagttatctacaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaatctctatgaatgtgatcagtgtagtaaagcctttgcatctcatagttatctccaagtacataaaagaatacacactggagagaagccctatgtatgtgattggtgtaataaagcctttgcatatcatagttatctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttccgagtgagcttaaaagacataaaagaatacatactggagagaaaccttacaaatgtaatgaatgtggtaaggcctttgtaggtcagaatgatcttaaaaaacatagaagaacacatactggagagaaaccttacaaatgtaatgaatgtggtaaggcctttgtattcaattttaatctccgagcacataaagtaatacatactggagagaaaccttacaaatgtagtgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacctttcgaatgtaagcaatgtggtaaagcctttgcatgtaacactagtctccaaacacatagagcaatacatactggagtgaaacctttcgaatgtaagcaatgtggtaaagcctttgtaggtcagaatgaccttaaaaggcatgaaagaattcatactggagagaaaccttacgaatgtaatgaatgtggtaaagccttttcacaatcaagccaactccaactacataaaagaacacatacatactaaagagtaaccctgtgaatgtaaccaatgcagtaaagcctttactgtgatattcaaaggtatggtggttaaaatatacttggcccatggcaagtggcattgttatgaggtatggcccttttggagtagatgtggcctttgaggatgtgtgtcactgtgggggagggggtggtggtggttggctttgagaccccatgcttaaactctacccagggcagaagagtcttctggctgccttctgatcaagatgtagaactctctccagcaccatgtctgcttggacactgagattccttccaccttgataatagactgaacctctgaatctgtataccctccccccaattaaatgtcctttctaaga
//
by
@meso_cacase at
DBCLS
This page is licensed under a
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.
[Full Text]