LOCUS       XM_023548533            3071 bp    mRNA    linear   MAM 05-APR-2024
DEFINITION  PREDICTED: Loxodonta africana nuclear factor kappa B subunit 1
            (NFKB1), transcript variant X4, mRNA.
ACCESSION   XM_023548533
VERSION     XM_023548533.2
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_023548533.1.
            
            ##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..3071
                     /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..3071
                     /gene="NFKB1"
                     /note="nuclear factor kappa B subunit 1; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 13 Proteins"
                     /db_xref="GeneID:100662194"
     CDS             115..2994
                     /gene="NFKB1"
                     /codon_start=1
                     /product="nuclear factor NF-kappa-B p105 subunit isoform
                     X4"
                     /protein_id="XP_023404301.1"
                     /db_xref="GeneID:100662194"
                     /translation="

MFHLEQLNHTIFNPELFQPEVPLPTDGPYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTNGKNIHLHAHSLVGKHCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEACIRGYNPGLLVHPDLAYLQAEGGGDRQLTDREKEIIRQAALHQTKEMDLSVVRLMFTAFLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYPEIKDKEEVQRKRQKLMPNFSDSFGGGSGAGAGGGGMFGSGGGGGGTGSTGPGYGFPPYGFPTYGGITFHSGTTKSNAGMKHGAIGTPSKKDHEGCDKSDDRDVINLSGKVTETTEQDKKSSNGHDGVTLTYTVGVKEENCRFQDNLFLEKAMQLAKRHANALFDYAVTGDVKMLLAVQRHLTAVQDENGDSVLHLAIIHLHAQLVRDLLEVTAGLISNDIINMRNDLYQTPLHLAVITKQEDVVEDLLRAGADLSLLDRLGNSVLHLAAKEGHDKILSVLLKHKQAALLINQPNGEGLNAIHIAMMSNSMSCLRLLVAAGADVDAQEQKSGRTALHLAVEHDNISLAGCLLLEGDALVDSTTFDGTTPLHIAAGRGSTRLAALLKAAGADPLVENFEPLYDLDDSWEKDGEDEGVVPGTTPLDMAANWQVFDILNGKPYESEFTSDDLLAQGDMKQLTEDAKLQLYKLLEIPDPDKNWATLAQKLGLGILNNAFRLSPAPSKTLMDNYEVSGGTVKELVEALRQMGYTEAIEVIQTAFYSSGTAATSSEKTPSQAHSLPLSPSSTRQQIDELRDNESICDSGVETSFRKLSFTESLTSSSSLLTLNKMPHNYGQQGSIEGNV"

     misc_feature    196..801
                     /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(238..240,244..249,253..258,265..276,499..501,
                     505..510,799..801)
                     /gene="NFKB1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:143651"
     misc_feature    820..1125
                     /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(823..825,829..837,841..849,967..975,1012..1014,
                     1048..1050,1105..1107,1114..1116,1120..1122)
                     /gene="NFKB1"
                     /note="ankyrin protein binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:238582"
     misc_feature    order(829..834,838..840,877..879,883..885,889..891,
                     988..993,1000..1002,1006..1008)
                     /gene="NFKB1"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238582"
     misc_feature    order(892..894,898..900,991..996)
                     /gene="NFKB1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238582"
     misc_feature    1549..2370
                     /gene="NFKB1"
                     /note="Ankyrin repeat [Signal transduction mechanisms];
                     Region: ANKYR; COG0666"
                     /db_xref="CDD:440430"
     misc_feature    order(1687..1689,1693..1695,1705..1710,1717..1725,
                     1729..1734,1744..1746,1753..1755,1798..1800,1804..1806,
                     1810..1812,1822..1827,1834..1842,1846..1851,1861..1863,
                     1870..1872,1897..1899,1903..1905,1909..1911,1921..1926,
                     1933..1941,1945..1950,1960..1962,1969..1971)
                     /gene="NFKB1"
                     /note="oligomer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:293786"
     misc_feature    1687..1800
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1804..1899
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2011..2103
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2113..2211
                     /gene="NFKB1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2509..2730
                     /gene="NFKB1"
                     /note="Death domain of the Nuclear Factor-KappaB1
                     precursor protein p105; Region: Death_NFkB1_p105; cd08797"
                     /db_xref="CDD:260063"
     polyA_site      3071
                     /gene="NFKB1"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

cccgcacccggacagcttcgactccggcctcttcgtccccgagcccccaggcccgcgctgccccggacggggagcccacaggcgcagtgaggccagcgcagactcgcgaccacgatgtttcacttggaacaattgaatcatacgatatttaatccagaattatttcaaccagaggtgccactgccaacagatggcccgtaccttcaaatattagagcaacctaaacagagaggattccgtttccgttatgtatgtgaaggcccgtcccatggtggacttcctggtgcgtctagtgaaaagaacaagaagtcctaccctcaggtcaaaatctgcaactatgtgggacctgcaaaggttattgttcagctggtcacgaatggaaaaaacatccacctgcatgcacacagcctggtggggaagcactgtgaggacgggatctgcactgtgactgctggacccaaggacatggtggtcggctttgcaaacctgggtatacttcatgtgacaaagaaaaaagtatttgagacactggaagcacgaatgacagaggcgtgtataagaggctataaccctggacttttagtgcatcctgatcttgcctatttgcaagcagaaggtggaggagacaggcaactcacagatcgggaaaaggagataatccgccaggctgctcttcatcagacaaaagagatggacctcagcgtggtgcggctcatgtttacagcttttcttccggacagcacgggcagcttcaccaggcgcctggagcccgtggtctcagatgccatctacgacagcaaagcccccaacgcgtccaatttgaaaattgtaagaatggacaggacagccggatgtgtaactggaggggaagagatttatcttctctgtgacaaggttcagaaagatgacatacagattcgattttatgaagaggaggaaaatggtggagtctgggaaggatttggagatttttcccccacagatgttcataggcagtttgccatcgtcttcaaaaccccaaagtataaagatgtcaacattacaaaaccagcctctgtgttcgtccaacttcgaaggaaatctgatttggaaactagtgaaccaaaaccttttctctactaccctgaaatcaaagataaagaggaagtgcagaggaaacggcagaagctcatgcccaatttttcggatagtttcggtggtggtagtggtgctggagctggaggtggaggcatgtttggtagtggcggcggaggagggggtactggaagtactggcccagggtatggcttcccaccctatggatttcctacatatggtggaatcaccttccattctggaaccactaaatctaatgctgggatgaagcacggagccataggcaccccatctaaaaaagaccatgaaggttgtgacaaaagtgatgacagagatgttataaatctttctgggaaagtaactgaaaccacagagcaagataagaagtccagcaatgggcatgacggggttactctgacgtatacagtaggagtaaaggaagagaattgcaggtttcaggataacctctttctagagaaggctatgcagcttgccaagcggcacgccaatgccctttttgactatgcggtaacaggagacgtgaagatgctgctggcggtccagcgccatcttactgcagtgcaggatgagaatggggacagcgtcttgcacttagcaatcatccaccttcatgcacagctggtgagggatctgctagaagtcacagcgggtttgatttccaatgacatcatcaacatgagaaatgatctttatcagacacccttgcacttagcagtgattaccaagcaagaagatgtggtggaggacttgctgagggccggggctgacctgagtctcctggaccgcctgggtaactctgttttacacctagctgccaaagaaggacatgataaaattctcagtgtcttactcaagcacaaacaggcagcactacttatcaaccagcctaacggggaaggtttgaacgccattcacatagccatgatgagcaacagcatgtcctgtctgcggctgctggtggccgcaggcgcggacgtcgatgctcaggagcagaagtctgggcgcacggcactgcacctggctgtggagcacgacaacatctccttggctggctgcctgctcctggagggtgatgcccttgtggacagtaccacctttgatggaactacgcccttgcatatagcagccgggagagggtccaccaggctggcagctcttctcaaagcagcaggagcagatcccctggtggagaactttgagcctctctatgacctggatgactcttgggaaaaggatggagaggacgaaggggtcgtgcctggaactacacctttagatatggctgccaactggcaggtttttgacatactaaatggaaaaccatatgagtcagagtttacatctgatgatttactggcacaaggagacatgaaacagctgactgaagatgcaaagttgcagctctacaagttgctagaaattcctgatccagacaaaaactgggccactctggcacagaaattaggtctggggatacttaataatgccttccgactgagtcctgctccttctaaaactcttatggacaactatgaggtctctggaggaacagtaaaggaactggtggaggccctgaggcagatgggctacacggaagcaattgaagtcatccagacagccttctacagctcagggacggcagccaccagctcagagaagacaccctctcaggcccactcgctgcctctctcaccttcctctacaaggcagcaaatagatgagctccgagacaacgaaagcatctgtgacagcggcgtggagacctctttccgcaaactcagcttcacagagtctctgaccagcagcagctcattgctaactctgaacaaaatgccccacaattatggacagcagggatccatagaaggcaatgtttaacctgctggtgattttcaacactgtgcaaaaccaaagtcctgaagttccactgcattgtccaaaagaagtaaggtaaa

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