2024-05-15 16:52:01, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_023734735 3153 bp mRNA linear MAM 25-JAN-2018 DEFINITION PREDICTED: Trichechus manatus latirostris nuclear factor kappa B subunit 1 (LOC101351866), transcript variant X3, mRNA. ACCESSION XM_023734735 VERSION XM_023734735.1 DBLINK BioProject: PRJNA189960 KEYWORDS RefSeq. SOURCE Trichechus manatus latirostris (Florida manatee) ORGANISM Trichechus manatus latirostris Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Afrotheria; Sirenia; Trichechidae; Trichechus. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NW_004444007.1) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Trichechus manatus latirostris Annotation Release 102 Annotation Version :: 102 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.0 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..3153 /organism="Trichechus manatus latirostris" /mol_type="mRNA" /isolate="Lorelei" /sub_species="latirostris" /db_xref="taxon:127582" /chromosome="Unknown" /sex="female" gene 1..3153 /gene="LOC101351866" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 25 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 7 samples with support for all annotated introns" /db_xref="GeneID:101351866" CDS 179..3091 /gene="LOC101351866" /codon_start=1 /product="nuclear factor NF-kappa-B p105 subunit isoform X3" /protein_id="XP_023590503.1" /db_xref="GeneID:101351866" /translation="
MAEDDPYLVGHEQMFHLEQLNHTIFNPELFQPEMPLPTADGPYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTNGKNIHLHAHSLVGKHCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEACIRGYNPGLLVHPDLAYLQAEGGGDRQLTDREKEIIRQAALHQTKEMDLSVVRLMFTAFLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDINITKPASVFVQLRRKSDLETSEPKPFLYYPEIKDKEEVQRKRQKLMPNFSDSFGGGSGAGAGGGGMFGSGGGGGGTGSTGPGYGFPPYGFPTYGGIAFHSGTTKSNAGMKHGDIGTPSKKDHKGCDDRDAINLSGKVTETTEQDKESSSEHEEVTLTYTVGVKEENCRFQDNLFLEKAMQLAKRHANALFDYAVTGDVKMLLAVQRHLTAVQDENGDSVLHLAIIHLHAQLVRDLLEVTAGVISDDIINMRNDLYQTPLHLAVITSQEDVVEDLLRAGADLSLLDRLGNSVLHLAAKEGHDKILSILLKHKKAALLINQPNGEGLNAIHIAMMSNSMSCLRLLMAAGADIDAQEQKSGRTALHLAVEHDNISLAGCLLLEGDAHVDSTTFDGTTPLHIAAGRGSTRLAALLKAAGADPLVENFEPLYDLDDSWERDGEDEGVVPGTTPLDMAANWQVFDILNGKPYESELTSDDLLAQGDMKQLAEDAKLQLYKLLEIPDPDKNWATLAQKLGLGILNNAFRLSPAPSKTLMDNYEVSGGTVKELVEALRQMGYTEAIEVIQTAFCSSGTATTSSVKTPSQAHSLPLSPSSTRQQIDELRDNESICDSGVETSFRKLSFTESLTSSGSLLTLNKMPHDYGQHGSIEGNV"
misc_feature 302..907 /gene="LOC101351866" /note="N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa B1 (NF-kappa B1); Region: RHD-n_NFkB1; cd07935" /db_xref="CDD:143651" misc_feature order(344..346,350..355,359..364,371..382,605..607, 611..616,905..907) /gene="LOC101351866" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:143651" misc_feature 926..1231 /gene="LOC101351866" /note="IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to...; Region: IPT_NFkappaB; cd01177" /db_xref="CDD:238582" misc_feature order(929..931,935..943,947..955,1073..1081,1118..1120, 1154..1156,1211..1213,1220..1222,1226..1228) /gene="LOC101351866" /note="ankyrin protein binding site [polypeptide binding]; other site" /db_xref="CDD:238582" misc_feature order(935..940,944..946,983..985,989..991,995..997, 1094..1099,1106..1108,1112..1114) /gene="LOC101351866" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238582" misc_feature order(998..1000,1004..1006,1097..1102) /gene="LOC101351866" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238582" misc_feature 1694..>2359 /gene="LOC101351866" /note="ankyrin-like protein; Provisional; Region: PHA03095" /db_xref="CDD:222980" misc_feature order(1784..1786,1790..1792,1802..1807,1814..1822, 1826..1831,1841..1843,1850..1852,1895..1897,1901..1903, 1907..1909,1919..1924,1931..1939,1943..1948,1958..1960, 1967..1969,1994..1996,2000..2002,2006..2008,2018..2023, 2030..2038,2042..2047,2057..2059,2066..2068) /gene="LOC101351866" /note="oligomer interface [polypeptide binding]; other site" /db_xref="CDD:293786" misc_feature 1784..1897 /gene="LOC101351866" /note="ANK repeat [structural motif]; Region: ANK repeat" /db_xref="CDD:293786" misc_feature 1901..1996 /gene="LOC101351866" /note="ANK repeat [structural motif]; Region: ANK repeat" /db_xref="CDD:293786" misc_feature 1916..2200 /gene="LOC101351866" /note="Ankyrin repeats (3 copies); Region: Ank_2; pfam12796" /db_xref="CDD:432791" misc_feature 2108..2200 /gene="LOC101351866" /note="ANK repeat [structural motif]; Region: ANK repeat" /db_xref="CDD:293786" misc_feature 2210..2308 /gene="LOC101351866" /note="ANK repeat [structural motif]; Region: ANK repeat" /db_xref="CDD:293786" misc_feature 2606..2827 /gene="LOC101351866" /note="Death domain of the Nuclear Factor-KappaB1 precursor protein p105; Region: Death_NFkB1_p105; cd08797" /db_xref="CDD:260063" ORIGIN
cgcggcgctgactggcccggcccggcgataccgcgcgccctcccgctgcgacccgccctgcacccggacggcttccagctccggcctcttcctccccgagcccccaggcccgcgccgccccggagggggagcccacaggcaccgtgaggccagcgcagactcgcgaccaggctccagaatggcagaagacgatccatatttggtagggcatgaacaaatgtttcacttggagcaattgaatcatacgatatttaatccagaattatttcaaccagagatgccactgccaacagcagatggcccataccttcaaatattagaacaacctaaacagagaggattccgtttccgttatgtatgtgaaggcccatcccatggtggccttcctggtgcatctagtgaaaagaacaagaagtcttaccctcaagtcaaaatctgcaactatgtgggacctgcaaaggttattgttcagctggtcacaaatggaaaaaacatccacctgcatgcgcacagcctggtggggaagcactgtgaggatgggatctgcactgtgactgctggacccaaggacatggtggtcggctttgcaaacctgggtatacttcatgtgacaaagaaaaaagtatttgagacactggaagcacgaatgacagaggcatgtataagaggctataaccctggacttttagtgcatcctgaccttgcctatttgcaagcagaaggtggaggagacaggcaactcacagatcgggaaaaggagataatccgccaggccgctcttcatcagaccaaagagatggacctcagcgtggtgcggctcatgtttacagcttttcttccagacagcacgggcagcttcacaaggcgtttggagcccgtggtctcagatgccatctatgacagcaaagcccccaatgcgtccaatttgaaaattgtaagaatggacaggacagccggatgtgtaactggaggggaagagatttatcttctctgtgacaaggttcagaaagatgacatacagattcgattttatgaagaggaggaaaatggtggagtctgggaaggatttggagatttttcacccacagatgttcataggcagtttgccattgtcttcaaaaccccaaagtataaagatatcaacattacaaaaccagcctctgtgttcgtccagcttcgaaggaaatctgatttggaaactagtgaaccaaaaccttttctctactaccctgaaatcaaagataaagaggaagtgcagaggaaacggcagaagctcatgcccaatttttcggatagtttcggtggtggtagtggtgctggagctggaggcggaggcatgttcggtagtggcggtggaggagggggtactggaagtacaggcccagggtatggcttccccccctacggatttcctacatatggtggaatcgccttccattctggaaccactaaatctaatgctgggatgaagcatggagacataggcaccccatctaaaaaagaccataaaggttgtgatgacagagatgctataaatctttctgggaaggtaactgaaaccacagagcaagataaggagtccagcagtgagcatgaagaggttactctgacgtatacagtaggagtaaaggaagagaattgcaggtttcaggataacctctttctagagaaggctatgcagcttgccaagcggcacgctaatgccctttttgactacgcggtaacaggagatgtgaagatgctgctggctgtccagcgccatcttactgcagtgcaggatgagaatggggacagcgtcttacacttagcgatcatccaccttcatgctcagcttgtgagggatctgctagaagtcacagcaggtgtgatttctgatgacatcatcaacatgagaaatgatctttaccagacgcccctgcacttagcagtaatcaccagtcaagaagatgtggtggaggacttgctgagggccggggctgacctgagtcttctggaccgcttgggtaactctgttttacacctagctgccaaagaaggacatgataaaattctcagtatcttactcaagcacaaaaaggcagcactacttatcaaccagcccaacggggaaggtttgaacgccattcacatagccatgatgagcaacagcatgtcgtgtctgcggctgctgatggccgccggcgcagacatagatgctcaggagcagaagtctgggcgcacggcactgcacctggctgtggagcatgacaacatctccttggctggctgcctgcttctggagggtgatgcccatgtggacagtactacctttgatggaactacacccttgcacatagcagctgggagagggtccaccaggctggcagctcttctcaaagcagcaggagcagatccactggtggagaactttgagcctctctatgacctggatgactcttgggaaagggatggagaggacgaaggggtcgtgcctggaaccacacctttagatatggctgccaactggcaggtttttgacatattaaatgggaaaccatatgagtcagagttaacatctgatgatttactggcacaaggagacatgaaacagctggctgaagatgcaaagttgcagctctacaagttgctagaaatccctgatccagacaaaaactgggccactctggcacagaaattaggtctgggtatacttaataatgctttccgactgagtcctgctccttctaaaactcttatggacaactacgaggtctctggagggacagtaaaggaactggtagaggccctgagacagatgggttacacggaagcaattgaagtcatccagacagccttctgcagctcaggaacagcaaccaccagctcagtgaagacgccttctcaggcccactcgctgcctctctcaccttcctctacacggcagcaaatagatgagctccgagataacgaaagcatctgtgacagcggcgtggagacctccttccgcaaactcagcttcacagagtctctgaccagcagcggctcattgctaactctgaacaaaatgccccacgattatgggcagcacggatctatagaaggcaatgtttaacctgctggtgattttcaacactgcaaaactgaagccctgaaattccaccacattgtccaaaa
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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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