LOCUS       XM_034500348            3540 bp    mRNA    linear   ROD 16-MAY-2020
DEFINITION  PREDICTED: Arvicanthis niloticus nuclear factor kappa B subunit 1
            (Nfkb1), transcript variant X2, mRNA.
ACCESSION   XM_034500348
VERSION     XM_034500348.1
DBLINK      BioProject: PRJNA632612
KEYWORDS    RefSeq.
SOURCE      Arvicanthis niloticus (Nile rat)
  ORGANISM  Arvicanthis niloticus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Arvicanthis.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_047661.1) annotated using gene prediction method: Gnomon,
            supported by mRNA evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Arvicanthis niloticus Annotation
                                           Release 100
            Annotation Version          :: 100
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.4
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..3540
                     /organism="Arvicanthis niloticus"
                     /mol_type="mRNA"
                     /isolate="mArvNil1"
                     /specimen_voucher="T564M"
                     /db_xref="taxon:61156"
                     /chromosome="4"
                     /sex="male"
                     /tissue_type="Spleen (genome), brain & testis
                     (transcriptome)"
                     /dev_stage="adult"
                     /country="USA: Santa Barbara"
                     /lat_lon="34.41938 N 119.69905 W"
                     /collection_date="06-Mar-2019"
                     /collected_by="Huishi Toh"
     gene            1..3540
                     /gene="Nfkb1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 1 mRNA, 10 Proteins, and 100%
                     coverage of the annotated genomic feature by RNAseq
                     alignments, including 4 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:117707042"
     CDS             155..2839
                     /gene="Nfkb1"
                     /codon_start=1
                     /product="nuclear factor NF-kappa-B p105 subunit isoform
                     X2"
                     /protein_id="XP_034356239.1"
                     /db_xref="GeneID:117707042"
                     /translation="

MADDDPYGTGQMFHLNTALTHSIFNAELYPPEIALSTDGPYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTNGKNIHLHAHSLVGKHCEDGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARMTEACIRGYNPGLLVHSDLAYLQAEGGGDRQLTDREKETIRQAALQQTKEMDLSVVRLMFTAFLPDSTGSFTRRLEPVVSDAIYDSKAPNASNLKIVRMDRTAGCVTGGEEIYLLCDKVQKDDIQIRFYEEEENGGVWEGFGDFSPTDVHRQFAIVFKTPKYKDVNITKPASVFVQLRRKSDLETSEPKPFLYYPEIKDKEEVQRKRQKLMPNFSDSFGGGSGAGAGGGGMFGSGGGGGSTGSPGPGYGFPHYGFSAYSGISFHPGATKSNAGITHGTINTKFKNDPKDCANSNDREILNLPEKEIEDEGPSLSIASTKTEAMALASTMEDKEQDVGFQDNLFLEKALQLAKRHANALFDYAVTGDVKMLLAVQRHLTAVQNENGDSVLHLAIIHLHAQLVRDLLEVTSGLISDDIINMRNDLYQTPLHLAVITKQEDVVEDLLRVGADLSLLDRWGNSVLHLAAKEGHDKILSILLKNRKAAPLIDHPNGEGLNAIHIAVMSNSLPCLLLLVAAGAEVNAQEQKSGRTALHLAVEYDNISLAGCLLLEGDAHVDSTTYDGTTPLHIAAGRGSTRLAALLKAAGADPLVENFEPLYDLDDSWEKAGEDEGMVPGTTPLDMAANWQVFDILNGKPYERVFTSDDILPQGDMKQLTEDTRLQLCKLLEIPDPDKNWATLAQKLGLGILNNAFRLSPAPSKTLMDNYEMSSGIVTASVTVVWRRPSVSSALQSLSLETAHCYL"

     misc_feature    272..877
                     /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(314..316,320..325,329..334,341..352,575..577,
                     581..586,875..877)
                     /gene="Nfkb1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:143651"
     misc_feature    896..1201
                     /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(899..901,905..913,917..925,1043..1051,1088..1090,
                     1124..1126,1181..1183,1190..1192,1196..1198)
                     /gene="Nfkb1"
                     /note="ankyrin protein binding site [polypeptide binding];
                     other site"
                     /db_xref="CDD:238582"
     misc_feature    order(905..910,914..916,953..955,959..961,965..967,
                     1064..1069,1076..1078,1082..1084)
                     /gene="Nfkb1"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238582"
     misc_feature    order(968..970,974..976,1067..1072)
                     /gene="Nfkb1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238582"
     misc_feature    1655..1762
                     /gene="Nfkb1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    <1754..1978
                     /gene="Nfkb1"
                     /note="Ankyrin repeats (3 copies); Region: Ank_2;
                     pfam12796"
                     /db_xref="CDD:432791"
     misc_feature    order(1766..1768,1772..1774,1784..1789,1796..1804,
                     1808..1813,1823..1825,1832..1834,1877..1879,1883..1885,
                     1889..1891,1901..1906,1913..1921,1925..1930,1940..1942,
                     1949..1951,1976..1978,1982..1984,1988..1990,2000..2005,
                     2012..2020,2024..2029,2039..2041,2048..2050)
                     /gene="Nfkb1"
                     /note="oligomer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:293786"
     misc_feature    1766..1879
                     /gene="Nfkb1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1883..1978
                     /gene="Nfkb1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    1898..2182
                     /gene="Nfkb1"
                     /note="Ankyrin repeats (3 copies); Region: Ank_2;
                     pfam12796"
                     /db_xref="CDD:432791"
     misc_feature    order(2090..2092,2096..2098,2108..2113,2120..2128,
                     2132..2137,2147..2149,2156..2158,2183..2185,2192..2194,
                     2198..2200,2210..2215,2222..2230,2234..2239,2252..2254,
                     2261..2263,2288..2290,2294..2296,2300..2302,2312..2317,
                     2324..2332,2336..2338)
                     /gene="Nfkb1"
                     /note="oligomer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:293786"
     misc_feature    2090..2185
                     /gene="Nfkb1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2105..>2335
                     /gene="Nfkb1"
                     /note="Ankyrin repeats (3 copies); Region: Ank_2;
                     pfam12796"
                     /db_xref="CDD:432791"
     misc_feature    2192..2290
                     /gene="Nfkb1"
                     /note="ANK repeat [structural motif]; Region: ANK repeat"
                     /db_xref="CDD:293786"
     misc_feature    2588..>2749
                     /gene="Nfkb1"
                     /note="Death Domain Superfamily of protein-protein
                     interaction domains; Region: DD; cl14633"
                     /db_xref="CDD:449339"
ORIGIN      

ccccgaccccgctcgggctcccgccggtccgcagcgggagcccgcaggcgaggagaggccgcgctgcacctccagggtaccctcagaggccagaagagggtgtcagatcccttataactggagtttgacggccgtgagctgccccatcttcaacatggcagacgatgatccatacggaactgggcaaatgtttcatttgaacactgctttgactcactcaatatttaatgcagaattatatccaccagaaatagcactgtcaacggacggcccataccttcaaatattagagcaaccaaaacagaggggatttcgattccgctatgtgtgtgaaggcccatcacacggagggcttccaggcgcctctagtgagaagaacaagaaatcctaccctcaggtcaaaatttgcaactatgtggggcctgcaaaggttatcgttcagttggtcacaaatggaaaaaacatccacctgcatgcccacagcctggtgggcaaacactgtgaggacggcatatgcaccgtaacagcaggacccaaggacatggtggttggctttgcaaacctgggaatactccatgtgactaagaaaaaggtatttgaaacactggaagcacggatgacagaggcgtgtataaggggctacaatcctggacttctggtgcattctgaccttgcctatctacaagcagaaggtggaggagaccggcaactcacagacagagagaaggagaccatccgccaggcagccctgcagcagaccaaggagatggacctgagtgtggtgcgcctcatgttcacagccttcctccccgacagcactggcagcttcactcggagactggagcctgtggtgtcagatgccatctatgacagcaaagcccccaacgcatccaacttgaaaatcgtgagaatggacagaacagcaggctgtgtgacgggaggggaagagatttatcttctctgtgacaaggtccagaaagatgacattcagattcggttttatgaagaggaagaaaatggcggagtttgggaaggatttggggacttttcccccaccgatgttcatagacagtttgccattgtcttcaaaacaccaaaatataaggatgtcaacattaccaaaccagcttccgtgtttgttcagcttcggagaaaatcggatttggaaactagtgaaccgaaaccctttctctactaccctgaaatcaaagacaaagaggaagtacagaggaagcgccagaagctcatgcccaacttctcggacagttttggcggtggcagtggagcgggagccggtggtggaggcatgtttggtagtggcggtggcggagggagtaccggaagtcccggcccagggtacggcttcccgcactacggattttccgcttacagtgggatttcattccatcctggagccactaaatccaacgcagggatcacccatggcaccataaacaccaaatttaaaaacgaccctaaagattgtgccaacagcaatgacagggagattctgaatctccctgagaaggaaatagaagatgaggggcccagcctttccatagccagcaccaagaccgaagcaatggccctggcatccaccatggaagacaaggaacaggatgtggggtttcaggataacctctttcttgagaaggctctgcagctcgccaagcggcacgccaatgcccttttcgactatgcggtgacgggagatgtgaagatgttgctggccgtgcagcgccatctcactgcggtacagaatgaaaacggggacagcgtcttacacttagccatcatccaccttcatgctcagctcgtgagggatctgctagaagtcacatccggtttgatctctgatgacatcatcaacatgagaaatgatctgtatcagacgccgttgcacttggccgtgatcaccaagcaggaagatgtggtggaggacttgctgagggttggggctgatctgagccttctggaccgctggggcaactctgtcctgcacctagctgccaaagaaggacatgataaaatcctgagcatcctactgaagaacaggaaagcagcacccctcattgaccaccccaatggggaaggtctaaatgccattcacatagctgtgatgagcaatagcctgccatgtctgctgctgctcgtggctgctggggcggaagtcaatgctcaggagcagaagtctgggcgcacagcgctgcacctggccgtggagtatgacaacatctcactggctggctgcctgcttctggagggtgatgcccacgtggacagtaccacctatgatgggactacgcctctgcatatagcagctggaagagggtccaccagactggcagctcttctcaaagccgcaggagcagaccccctggtggagaacttcgagcctctgtatgacctggacgactcttgggaaaaggctggagaagacgagggaatggtgccaggcaccacacccctggacatggctgccaactggcaggtatttgacatactaaatgggaaaccatatgaacgagtgttcacatctgatgatatactaccacaaggagacatgaagcagctgacagaagacacgaggctgcaactttgcaagctgttggaaattcctgatccagacaaaaactgggccaccctggcacagaagttaggtctggggatattgaacaatgccttccggctgagtcctgctccttctaaaactcttatggacaactatgagatgagctccgggatagtgacagcgtctgtgacagtggtgtggagacgtccttccgtaagctcagctttacagagtctctcactggagacagcccactgctatctctgaacaaaatgccccacagttacgggcaggaaggacctatagaaggcaaaatttagcctgctgccagtttcccacaccgtgtaaaccaaagccctgaaagtccattgcatcgctccaaaggaagaaggcaacgcacatccaaaggtgctggagggtcaccggcctgcagggccactcttgatttcattcaaggccttccaaatttggcctcctttcttggttctgaaatgaaatttagttgtcatatacagatggtgtctagcaatcacagcactcggctgcgcgctgtgtggctggggtatggaggcttagcttttccacctgctattggattacacttgctttgtgttgttactgctgtccctctgctgggttcctgctgtctttaaaaggtgtcgctgtccccacctggtgttctttctagccatctacagtacagttgtgcattcaaattaagattaaggaaaaagatatttttaaataagtaacttgatgcgcaataaaaaaaaaagacattgctttttctaatgtggttatctgtgatttaaaaaaaaaacacatgaacttaacaatatttaaaacatgctacaatcagtgctgaaaatagtattttcccccttttctgcattttactattgtaaatatgttttctaaatcaaatactttaaaagaagaaatgttggatttataaatgctatttttta

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