LOCUS       XM_023548534            2929 bp    mRNA    linear   MAM 05-APR-2024
DEFINITION  PREDICTED: Loxodonta africana nuclear factor kappa B subunit 1
            (NFKB1), transcript variant X5, mRNA.
ACCESSION   XM_023548534
VERSION     XM_023548534.2
DBLINK      BioProject: PRJNA1092696
KEYWORDS    RefSeq.
SOURCE      Loxodonta africana (African savanna elephant)
  ORGANISM  Loxodonta africana
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Afrotheria; Proboscidea; Elephantidae;
            Loxodonta.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_087346) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Apr 5, 2024 this sequence version replaced XM_023548534.1.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_030014295.1-RS_2024_04
            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             :: 04/02/2024
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2929
                     /organism="Loxodonta africana"
                     /mol_type="mRNA"
                     /isolate="mLoxAfr1"
                     /db_xref="taxon:9785"
                     /chromosome="5"
                     /sex="male"
                     /cell_line="Cultured endothelial cells from umbilical
                     cord; passage 7"
                     /tissue_type="Original tissue source of cells is from
                     umbilical cord"
                     /dev_stage="juvenile"
                     /geo_loc_name="USA: Louisville Zoo, Kentucky"
                     /lat_lon="38.2057 N 85.7071 W"
                     /collection_date="2022-02-22"
                     /collected_by="Austin Bow"
     gene            1..2929
                     /gene="NFKB1"
                     /note="nuclear factor kappa B subunit 1; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 9 Proteins"
                     /db_xref="GeneID:100662194"
     CDS             117..2852
                     /gene="NFKB1"
                     /codon_start=1
                     /product="nuclear factor NF-kappa-B p105 subunit isoform
                     X5"
                     /protein_id="XP_023404302.1"
                     /db_xref="GeneID:100662194"
                     /translation="

MAEDDPYLVGHEQMFHLEQLNHTIFNPELFQPEVPLPTADGPYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTNGKNIHLHAHSLVGKHCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEACIRGYNPGLLVHPDLAYLQAEGGGDRQLTDREKEIIRQAALHQTKEMDLSVVRLMFTAFLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYPEIKDKEEVQRKRQKLMPNFSDSFGGGSGAGAGGGGMFGSGGGGGGTGSTGPGYGFPPYGFPTYGGITFHSGTTKSNAGMKHDNLFLEKAMQLAKRHANALFDYAVTGDVKMLLAVQRHLTAVQDENGDSVLHLAIIHLHAQLVRDLLEVTAGLISNDIINMRNDLYQTPLHLAVITKQEDVVEDLLRAGADLSLLDRLGNSVLHLAAKEGHDKILSVLLKHKQAALLINQPNGEGLNAIHIAMMSNSMSCLRLLVAAGADVDAQEQKSGRTALHLAVEHDNISLAGCLLLEGDALVDSTTFDGTTPLHIAAGRGSTRLAALLKAAGADPLVENFEPLYDLDDSWEKDGEDEGVVPGTTPLDMAANWQVFDILNGKPYESEFTSDDLLAQGDMKQLTEDAKLQLYKLLEIPDPDKNWATLAQKLGLGILNNAFRLSPAPSKTLMDNYEVSGGTVKELVEALRQMGYTEAIEVIQTAFYSSGTAATSSEKTPSQAHSLPLSPSSTRQQIDELRDNESICDSGVETSFRKLSFTESLTSSSSLLTLNKMPHNYGQQGSIEGNV"

     misc_feature    240..845
                     /gene="NFKB1"
                     /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(282..284,288..293,297..302,309..320,543..545,
                     549..554,843..845)
                     /gene="NFKB1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:143651"
     misc_feature    864..1169
                     /gene="NFKB1"
                     /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(867..869,873..881,885..893,1011..1019,1056..1058,
                     1092..1094,1149..1151,1158..1160,1164..1166)
                     /gene="NFKB1"
                     /note="ankyrin protein binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:238582"
     misc_feature    order(873..878,882..884,921..923,927..929,933..935,
                     1032..1037,1044..1046,1050..1052)
                     /gene="NFKB1"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238582"
     misc_feature    order(936..938,942..944,1035..1040)
                     /gene="NFKB1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238582"
     misc_feature    1413..2228
                     /gene="NFKB1"
                     /note="Ankyrin repeat [Signal transduction mechanisms];
                     Region: ANKYR; COG0666"
                     /db_xref="CDD:440430"
     misc_feature    order(1545..1547,1551..1553,1563..1568,1575..1583,
                     1587..1592,1602..1604,1611..1613,1656..1658,1662..1664,
                     1668..1670,1680..1685,1692..1700,1704..1709,1719..1721,
                     1728..1730,1755..1757,1761..1763,1767..1769,1779..1784,
                     1791..1799,1803..1808,1818..1820,1827..1829)
                     /gene="NFKB1"
                     /note="oligomer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:293786"
     misc_feature    1545..1658
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1662..1757
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1869..1961
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1971..2069
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2367..2588
                     /gene="NFKB1"
                     /note="Death domain of the Nuclear Factor-KappaB1
                     precursor protein p105; Region: Death_NFkB1_p105; cd08797"
                     /db_xref="CDD:260063"
     polyA_site      2929
                     /gene="NFKB1"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

acccggacagcttcgactccggcctcttcgtccccgagcccccaggcccgcgctgccccggacggggagcccacaggcgcagtgaggccagcgcagactcgcgaccacgctccagaatggcagaagacgatccatatttggtagggcatgaacaaatgtttcacttggaacaattgaatcatacgatatttaatccagaattatttcaaccagaggtgccactgccaacagcagatggcccgtaccttcaaatattagagcaacctaaacagagaggattccgtttccgttatgtatgtgaaggcccgtcccatggtggacttcctggtgcgtctagtgaaaagaacaagaagtcctaccctcaggtcaaaatctgcaactatgtgggacctgcaaaggttattgttcagctggtcacgaatggaaaaaacatccacctgcatgcacacagcctggtggggaagcactgtgaggacgggatctgcactgtgactgctggacccaaggacatggtggtcggctttgcaaacctgggtatacttcatgtgacaaagaaaaaagtatttgagacactggaagcacgaatgacagaggcgtgtataagaggctataaccctggacttttagtgcatcctgatcttgcctatttgcaagcagaaggtggaggagacaggcaactcacagatcgggaaaaggagataatccgccaggctgctcttcatcagacaaaagagatggacctcagcgtggtgcggctcatgtttacagcttttcttccggacagcacgggcagcttcaccaggcgcctggagcccgtggtctcagatgccatctacgacagcaaagcccccaacgcgtccaatttgaaaattgtaagaatggacaggacagccggatgtgtaactggaggggaagagatttatcttctctgtgacaaggttcagaaagatgacatacagattcgattttatgaagaggaggaaaatggtggagtctgggaaggatttggagatttttcccccacagatgttcataggcagtttgccatcgtcttcaaaaccccaaagtataaagatgtcaacattacaaaaccagcctctgtgttcgtccaacttcgaaggaaatctgatttggaaactagtgaaccaaaaccttttctctactaccctgaaatcaaagataaagaggaagtgcagaggaaacggcagaagctcatgcccaatttttcggatagtttcggtggtggtagtggtgctggagctggaggtggaggcatgtttggtagtggcggcggaggagggggtactggaagtactggcccagggtatggcttcccaccctatggatttcctacatatggtggaatcaccttccattctggaaccactaaatctaatgctgggatgaagcacgataacctctttctagagaaggctatgcagcttgccaagcggcacgccaatgccctttttgactatgcggtaacaggagacgtgaagatgctgctggcggtccagcgccatcttactgcagtgcaggatgagaatggggacagcgtcttgcacttagcaatcatccaccttcatgcacagctggtgagggatctgctagaagtcacagcgggtttgatttccaatgacatcatcaacatgagaaatgatctttatcagacacccttgcacttagcagtgattaccaagcaagaagatgtggtggaggacttgctgagggccggggctgacctgagtctcctggaccgcctgggtaactctgttttacacctagctgccaaagaaggacatgataaaattctcagtgtcttactcaagcacaaacaggcagcactacttatcaaccagcctaacggggaaggtttgaacgccattcacatagccatgatgagcaacagcatgtcctgtctgcggctgctggtggccgcaggcgcggacgtcgatgctcaggagcagaagtctgggcgcacggcactgcacctggctgtggagcacgacaacatctccttggctggctgcctgctcctggagggtgatgcccttgtggacagtaccacctttgatggaactacgcccttgcatatagcagccgggagagggtccaccaggctggcagctcttctcaaagcagcaggagcagatcccctggtggagaactttgagcctctctatgacctggatgactcttgggaaaaggatggagaggacgaaggggtcgtgcctggaactacacctttagatatggctgccaactggcaggtttttgacatactaaatggaaaaccatatgagtcagagtttacatctgatgatttactggcacaaggagacatgaaacagctgactgaagatgcaaagttgcagctctacaagttgctagaaattcctgatccagacaaaaactgggccactctggcacagaaattaggtctggggatacttaataatgccttccgactgagtcctgctccttctaaaactcttatggacaactatgaggtctctggaggaacagtaaaggaactggtggaggccctgaggcagatgggctacacggaagcaattgaagtcatccagacagccttctacagctcagggacggcagccaccagctcagagaagacaccctctcaggcccactcgctgcctctctcaccttcctctacaaggcagcaaatagatgagctccgagacaacgaaagcatctgtgacagcggcgtggagacctctttccgcaaactcagcttcacagagtctctgaccagcagcagctcattgctaactctgaacaaaatgccccacaattatggacagcagggatccatagaaggcaatgtttaacctgctggtgattttcaacactgtgcaaaaccaaagtcctgaagttccactgcattgtccaaaagaagtaaggtaaa

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