LOCUS       NM_001107817            2586 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus negative elongation factor complex member B
            (Nelfb), mRNA.
ACCESSION   NM_001107817 XM_001072175 XM_231046
VERSION     NM_001107817.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2586)
  AUTHORS   Pan,H., Zhao,X., Zhang,X., Abouelsoud,M., Sun,J., April,C.,
            Amleh,A., Fan,J.B., Hu,Y. and Li,R.
  TITLE     Translational Initiation at a Non-AUG Start Codon for Human and
            Mouse Negative Elongation Factor-B
  JOURNAL   PLoS One 10 (5), e0127422 (2015)
   PUBMED   26010750
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2586)
  AUTHORS   Williams,L.H., Fromm,G., Gokey,N.G., Henriques,T., Muse,G.W.,
            Burkholder,A., Fargo,D.C., Hu,G. and Adelman,K.
  TITLE     Pausing of RNA polymerase II regulates mammalian developmental
            potential through control of signaling networks
  JOURNAL   Mol Cell 58 (2), 311-322 (2015)
   PUBMED   25773599
REFERENCE   3  (bases 1 to 2586)
  AUTHORS   Pan,H., Qin,K., Guo,Z., Ma,Y., April,C., Gao,X., Andrews,T.G.,
            Bokov,A., Zhang,J., Chen,Y., Weintraub,S.T., Fan,J.B., Wang,D.,
            Hu,Y., Aune,G.J., Lindsey,M.L. and Li,R.
  TITLE     Negative elongation factor controls energy homeostasis in
            cardiomyocytes
  JOURNAL   Cell Rep 7 (1), 79-85 (2014)
   PUBMED   24656816
REFERENCE   4  (bases 1 to 2586)
  AUTHORS   Luo,M., Lu,X., Zhu,R., Zhang,Z., Chow,C.C., Li,R. and Simons,S.S.
            Jr.
  TITLE     A conserved protein motif is required for full modulatory activity
            of negative elongation factor subunits NELF-A and NELF-B in
            modifying glucocorticoid receptor-regulated gene induction
            properties
  JOURNAL   J Biol Chem 288 (47), 34055-34072 (2013)
   PUBMED   24097989
  REMARK    GeneRIF: These studies allow us to position the actions of two new
            modulators of GR-regulated transactivation, NELF-A and NELF-B,
            relative to other factors in the overall gene induction sequence.
REFERENCE   5  (bases 1 to 2586)
  AUTHORS   Kwak,H. and Lis,J.T.
  TITLE     Control of transcriptional elongation
  JOURNAL   Annu Rev Genet 47, 483-508 (2013)
   PUBMED   24050178
  REMARK    Review article
REFERENCE   6  (bases 1 to 2586)
  AUTHORS   Amleh,A., Nair,S.J., Sun,J., Sutherland,A., Hasty,P. and Li,R.
  TITLE     Mouse cofactor of BRCA1 (Cobra1) is required for early
            embryogenesis
  JOURNAL   PLoS One 4 (4), e5034 (2009)
   PUBMED   19340312
REFERENCE   7  (bases 1 to 2586)
  AUTHORS   Narita,T., Yamaguchi,Y., Yano,K., Sugimoto,S., Chanarat,S.,
            Wada,T., Kim,D.K., Hasegawa,J., Omori,M., Inukai,N., Endoh,M.,
            Yamada,T. and Handa,H.
  TITLE     Human transcription elongation factor NELF: identification of novel
            subunits and reconstitution of the functionally active complex
  JOURNAL   Mol Cell Biol 23 (6), 1863-1873 (2003)
   PUBMED   12612062
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000003.1 and BC160853.1.
            
            On Jul 3, 2015 this sequence version replaced NM_001107817.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360172.935394.1,
                                           SRR26360176.109032.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            non-AUG initiation codon :: inferred from conservation
            RefSeq Select criteria   :: based on single protein-coding
                                        transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-37                JAXUCZ010000003.1  28425528-28425564   c
            38-485              BC160853.1         1-448
            486-2586            BC160853.1         608-2708
FEATURES             Location/Qualifiers
     source          1..2586
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="3"
                     /map="3p13"
     gene            1..2586
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /note="negative elongation factor complex member B"
                     /db_xref="GeneID:311796"
                     /db_xref="RGD:1307832"
     exon            1..321
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     CDS             67..1962
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /note="non-AUG (CUG) translation initiation codon;
                     negative elongation factor protein B; cofactor of BRCA1"
                     /codon_start=1
                     /product="negative elongation factor B"
                     /protein_id="NP_001101287.3"
                     /db_xref="GeneID:311796"
                     /db_xref="RGD:1307832"
                     /translation="MATLEAAGERGLGGPRGTVERTSGAPSASATAPAERGGDGVHSR
                     AAVGASAMFAGLQDLGVANGEDLKETLTNCTEPLKAIEQFQTENGVLLPSLQSALPFL
                     DLHGTPRLEFHQSVFDELRDKLLERVSAIASEGKAEERYKKLEDLLEKSFSLVKMPSL
                     QPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQALFGDEVSPLLKQ
                     YILEKESALFSTELSVLHNFFSPSPKTRRQGEVVQKLTQMVGKNVKLYDMVLQFLRTL
                     FLRTRNVHYCTLRAELLMSLHDLDVSDICTVDPCHKFTWCLDACIRERFVDSKRAREL
                     QGFLDGVKKGQEQVLGDLSMILCDPFAINTLSLSTIRHLQELVSQETLPRDSPDLLLL
                     LRLLALGQGAWDLIDSQVFKEPKMEAELITKFLPMLMSFVVDDYTFNVDQKLPAEEKA
                     PVTYPNTLPESFTKFLQEQRMACEVGLYYVLHITKQRNKNALLRLLPGLVETFGDLAF
                     SDIFLHLLTGSLALLADEFALEDFCSSLFDGFFLTASPRKDNVHRHVLRLLLHLHARV
                     APSKLEALQKALEPTGQSGEAVKELYSQLGEKLEQLDHRKPSPPQAAETPALELPLPS
                     VPAPAAL"
     exon            322..485
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            486..585
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            586..816
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            817..1002
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1003..1115
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1116..1218
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1219..1314
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1315..1457
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1458..1564
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1565..1706
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1707..1815
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
     exon            1816..2548
                     /gene="Nelfb"
                     /gene_synonym="Cobra1; RGD1307832"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggacctagac agtcaagggc ggaagtggga ggtgtgggtc ggtgcaagca gctctgctga
       61 cgcgatctgg ccacactgga ggcggcgggc gaacggggct tgggtggtcc tcgtggcacc
      121 gtggaaagga cgtctggggc tccgtcagcg tccgctacgg ctccagcaga gcgcggcggg
      181 gatggggtac acagccgagc ggccgtcgga gcctcggcca tgtttgcggg gctccaggac
      241 ctgggcgtgg ccaatggcga ggacctgaaa gagaccctaa ccaactgcac cgagcctctc
      301 aaggccattg agcaatttca gacagagaat ggcgtgttgc tgccttccct gcagtcggcc
      361 ctgcccttct tggatctaca cgggacaccg cggctggagt tccatcagtc agtgtttgat
      421 gagctacgcg acaaactgct ggaacgagtg tcagctattg cctctgaggg aaaggcagag
      481 gagaggtaca agaagctgga agaccttctg gaaaagagct tttctctggt caagatgcca
      541 tccctacagc cagtggtgat gtgtgttatg aaacacttgc ccaaggttcc tgagaagaag
      601 ctgaagctgg tgatggctga caaggagttg taccgggcat gtgctgtgga agtgaagagg
      661 cagatctggc aagataacca ggctctcttt ggtgatgaag tctcaccact gttgaagcag
      721 tatatcctag agaaggagag tgcactgttc agcacggagc tctctgtcct gcacaacttc
      781 ttcagccctt cccccaagac caggcgtcag ggagaggtgg tgcagaagct gacacagatg
      841 gtagggaaga acgtgaagct gtatgacatg gtgctgcagt tcttgcgcac actgttcctt
      901 cggaccagga atgtgcacta ctgcacgcta cgagccgagc tgctgatgtc tttgcatgac
      961 ctggatgtca gtgatatctg caccgtggat ccctgccata agttcacctg gtgcctggat
     1021 gcctgcatcc gtgagcggtt tgtggacagc aaacgagccc gagagctgca gggattcctt
     1081 gatggtgtga agaagggcca ggaacaagtt ttgggggact tgtctatgat cctgtgtgac
     1141 ccttttgcca tcaacactct gtccctgagc accatcaggc acttgcagga gctggttagc
     1201 caggagaccc tgcccaggga cagtcccgac ctcctcctcc tccttaggct gctggcactg
     1261 ggccaaggtg catgggactt aatagacagc caggtcttca aggagcccaa gatggaggca
     1321 gagctcatca ccaagttcct gccgatgctc atgtccttcg tggtggatga ctacactttc
     1381 aacgtagatc agaagcttcc agctgaggag aaagccccag tcacatatcc caacacgctt
     1441 cctgaaagct tcaccaagtt tctgcaggag cagcgcatgg cttgtgaggt gggactgtac
     1501 tatgttctac acatcaccaa gcagagaaac aagaatgctc tcctgcgcct gctgcctggt
     1561 cttgtggaaa cctttggtga cctggccttc agtgacatct tcctccacct actcactggg
     1621 agtctggcgc tgttggctga tgaatttgcc ctggaggact tttgcagcag cctctttgat
     1681 ggcttcttcc tcactgcctc tcccaggaag gacaatgtac accgccatgt gctgaggctt
     1741 ctccttcact tgcatgcgag agtggcccct tccaagctgg aggcgttgca gaaggcgctg
     1801 gagcccacgg gccagagcgg ggaggctgtg aaggagctct actcccagct tggtgagaag
     1861 ttggagcagt tggaccatcg gaagcccagt cctccccaag ctgcagagac ccccgcactg
     1921 gagctgcctc ttcccagtgt gcctgctcca gccgcactgt gacgctctgg ggaactgtct
     1981 gacgggcgtg ccctgatgga agggcaccct agttggccag ggtgtaggct gagccgagag
     2041 ggctgttcct tggcaaggta cctcctcctc tgagttgctg ccaggagctg gtcccaaaag
     2101 gtctcgatag tctccttgca catcaaaggg ggcccatgat ggcatggtgg gacttggccc
     2161 ctgcttgacc ctggcagagg tggatggtgg ttgggatata gggaaagcag tgggcaaagg
     2221 cctgactgac attcagtctg gacaaagtcc aaggagaaag gaatgctggg ttcaccaaag
     2281 caggtgccgg gcctgatgtc tcaagcacag gagtggtgtc ctccatggaa gccaggtgga
     2341 gagtctgcag caggcctgag cctggttata gcagtgcaca gtccatgctg actgatctgt
     2401 aggcaaagct ctgccctgca gctccctgct tcagtttacc tttgcaatag aagcagatcc
     2461 tccagctacg tgttttagcc ttcgagtagg gactttgggt gtacacattg atggttccac
     2521 ttacgtgaat aaagcacgtt ttgataaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa
     2581 aaaaaa
//
