LOCUS       NM_001285416            4078 bp    mRNA    linear   ROD 18-FEB-2025
DEFINITION  Mus musculus brain derived neurotrophic factor (Bdnf), transcript
            variant 5, mRNA.
ACCESSION   NM_001285416
VERSION     NM_001285416.1
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4078)
  AUTHORS   Quirie,A., Mor,D., Meloux,A., Etievant,A., Garnier,P., Totoson,P.,
            Wirtz,J., Prigent-Tessier,A., Marie,C. and Demougeot,C.
  TITLE     Anxio-depressive phenotype and impaired memory in mice with a
            conditional knockout of brain-derived neurotrophic factor in
            endothelial cells
  JOURNAL   Am J Physiol Cell Physiol 328 (1), C303-C314 (2025)
   PUBMED   39652745
REFERENCE   2  (bases 1 to 4078)
  AUTHORS   Shen,C.L., Tsai,Y.Y., Chou,S.J., Chang,Y.M. and Tarn,W.Y.
  TITLE     RBM4-mediated intron excision of Hsf1 induces BDNF for cerebellar
            foliation
  JOURNAL   Commun Biol 7 (1), 1712 (2024)
   PUBMED   39738787
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4078)
  AUTHORS   Dudukcu,O., Raj,D.D.A., van de Haar,L.L., Grossouw,L.M.,
            Linders,L.E., Garritsen,O., Adolfs,Y., van Kronenburg,N.C.H.,
            Broekhoven,M.H., Kapteijns,T.H.W., Meye,F.J. and Pasterkamp,R.J.
  TITLE     Molecular diversity and migration of GABAergic neurons in the
            developing ventral midbrain
  JOURNAL   iScience 27 (11), 111239 (2024)
   PUBMED   39569362
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4078)
  AUTHORS   Chen,S.C., Chen,Y.H., Song,Y., Zong,S.H., Wu,M.X., Wang,W.,
            Wang,H., Zhang,F., Zhou,Y.M., Yu,H.Y., Zhang,H.T. and Zhang,F.F.
  TITLE     Upregulation of Phosphodiesterase 7A Contributes to Concurrent Pain
            and Depression via Inhibition of cAMP-PKA-CREB-BDNF Signaling and
            Neuroinflammation in the Hippocampus of Mice
  JOURNAL   Int J Neuropsychopharmacol 27 (10) (2024)
   PUBMED   39283715
  REMARK    GeneRIF: Upregulation of Phosphodiesterase 7A Contributes to
            Concurrent Pain and Depression via Inhibition of cAMP-PKA-CREB-BDNF
            Signaling and Neuroinflammation in the Hippocampus of Mice.
REFERENCE   5  (bases 1 to 4078)
  AUTHORS   Yoo,K., Jo,Y.W., Yoo,T., Hann,S.H., Park,I., Kim,Y.E., Kim,Y.L.,
            Rhee,J., Song,I.W., Kim,J.H., Baek,D. and Kong,Y.Y.
  TITLE     Muscle-resident mesenchymal progenitors sense and repair peripheral
            nerve injury via the GDNF-BDNF axis
  JOURNAL   Elife 13, 97662 (2024)
   PUBMED   39324575
  REMARK    GeneRIF: Muscle-resident mesenchymal progenitors sense and repair
            peripheral nerve injury via the GDNF-BDNF axis.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4078)
  AUTHORS   Aid,T., Kazantseva,A., Piirsoo,M., Palm,K. and Timmusk,T.
  TITLE     Mouse and rat BDNF gene structure and expression revisited
  JOURNAL   J Neurosci Res 85 (3), 525-535 (2007)
   PUBMED   17149751
  REMARK    GeneRIF: distinct tissue-specific expression profiles of each of
            mouse 5' exon-specific transcripts in different brain regions and
            nonneural tissues.
REFERENCE   7  (bases 1 to 4078)
  AUTHORS   D'Mello,S.R., Jiang,C., Lamberti,C., Martin,S.C. and Heinrich,G.
  TITLE     Differential regulation of the nerve growth factor and
            brain-derived neurotrophic factor genes in L929 mouse fibroblasts
  JOURNAL   J Neurosci Res 33 (4), 519-526 (1992)
   PUBMED   1336558
REFERENCE   8  (bases 1 to 4078)
  AUTHORS   Klein,R., Nanduri,V., Jing,S.A., Lamballe,F., Tapley,P., Bryant,S.,
            Cordon-Cardo,C., Jones,K.R., Reichardt,L.F. and Barbacid,M.
  TITLE     The trkB tyrosine protein kinase is a receptor for brain-derived
            neurotrophic factor and neurotrophin-3
  JOURNAL   Cell 66 (2), 395-403 (1991)
   PUBMED   1649702
REFERENCE   9  (bases 1 to 4078)
  AUTHORS   Soppet,D., Escandon,E., Maragos,J., Middlemas,D.S., Reid,S.W.,
            Blair,J., Burton,L.E., Stanton,B.R., Kaplan,D.R., Hunter,T.,
            Nikolics,K. and Parada,L.F.
  TITLE     The neurotrophic factors brain-derived neurotrophic factor and
            neurotrophin-3 are ligands for the trkB tyrosine kinase receptor
  JOURNAL   Cell 65 (5), 895-903 (1991)
   PUBMED   1645620
REFERENCE   10 (bases 1 to 4078)
  AUTHORS   Bothwell,M.A. and Shooter,E.M.
  TITLE     Dissociation equilibrium constant of beta nerve growth factor
  JOURNAL   J Biol Chem 252 (23), 8532-8536 (1977)
   PUBMED   925010
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AY057910.1 and AL732477.10.
            
            Summary: The protein encoded by this gene is a member of the nerve
            growth factor family. It is involved in the growth, differentiation
            and survival of specific types of developing neurons both in the
            central nervous system (CNS) and the peripheral nervous system. It
            is also involved in regulating synaptic plasticity in the CNS.
            Expression of a similar gene in human is reduced in both
            Alzheimer's and Huntington disease patients. Alternative splicing
            results in multiple transcript variants encoding different isoforms
            that may undergo similar processing to generate mature protein.
            [provided by RefSeq, Oct 2015].
            
            Transcript Variant: This variant (5) differs in the 5' UTR and
            coding region, and uses a downstream translation start compared to
            variant 1. The resulting protein (isoform 2) has a shorter
            N-terminus compared to isoform 1. Variants 2, 3, 4, 5, 6, 7, 8, 9,
            10, 11 and 12 encode the same protein.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: EF125671.1, AY057910.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164132
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1561              AY057910.1         1-1561
            1562-4078           AL732477.10        104069-106585       c
FEATURES             Location/Qualifiers
     source          1..4078
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 56.63 cM"
     gene            1..4078
                     /gene="Bdnf"
                     /note="brain derived neurotrophic factor"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
     exon            1..416
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     exon            417..4078
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     CDS             438..1187
                     /gene="Bdnf"
                     /note="isoform 2 preproprotein is encoded by transcript
                     variant 5; proBDNF; neurotrophic factor BDNF precursor
                     form"
                     /codon_start=1
                     /product="neurotrophic factor BDNF precursor form isoform
                     2 preproprotein"
                     /protein_id="NP_001272345.1"
                     /db_xref="CCDS:CCDS38194.1"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
                     /translation="MTILFLTMVISYFGCMKAAPMKEVNVHGQGNLAYPGVRTHGTLE
                     SVNGPRAGSRGLTTTSLADTFEHVIEELLDEDQKVRPNEENHKDADLYTSRVMLSSQV
                     PLEPPLLFLLEEYKNYLDAANMSMRVRRHSDPARRGELSVCDSISEWVTAADKKTAVD
                     MSGGTVTVLEKVPVSKGQLKQYFYETKCNPMGYTKEGCRGIDKRHWNSQCRTTQSYVR
                     ALTMDSKKRIGWRFIRIDTSCVCTLTIKRGR"
     regulatory      1471..1476
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1499
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1679..1684
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      1699
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1912..1917
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AACAAA"
     regulatory      1916..1921
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1927
                     /gene="Bdnf"
     polyA_site      1955
                     /gene="Bdnf"
     regulatory      3957..3962
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      3979
                     /gene="Bdnf"
ORIGIN      
        1 gctttggcaa agccatccac acgtgacaaa acgtaaggaa gtggaagaaa ccgtctagag
       61 caatatcaag taccacttaa ttagagaata tttttttaac cttttcctcc tcctgcgccg
      121 ggtgtgtgat cccggagagc agagtccatt cagcaccttg gacagagcca gcggatttgt
      181 ccgaggtggt agtacttcat ccaggtattc ttttcctcgc tgtcaagcca acccggtgtc
      241 gcccttaaaa agcgtctttt ccgaggttcg gctcacaccg agatcggggc tggagagaga
      301 gtcagatttt ggagcggagc gtttggagag cgagccccag tttggtcccc tcattgagct
      361 cgctgaagtt ggcttcctag cggtgtaggc tggaatagac tcttggcaag ctccggttcc
      421 accaggtgag aagagtgatg accatccttt tccttactat ggttatttca tacttcggtt
      481 gcatgaaggc ggcgcccatg aaagaagtaa acgtccacgg acaaggcaac ttggcctacc
      541 caggtgtgcg gacccatggg actctggaga gcgtgaatgg gcccagggca ggttcgagag
      601 gtctgacgac gacatcactg gctgacactt ttgagcacgt catcgaagag ctgctggatg
      661 aggaccagaa ggttcggccc aacgaagaaa accataagga cgcggacttg tacacttccc
      721 gggtgatgct cagcagtcaa gtgcctttgg agcctcctct actctttctg ctggaggaat
      781 acaaaaatta cctggatgcc gcaaacatgt ctatgagggt tcggcgccac tccgaccctg
      841 cccgccgtgg ggagctgagc gtgtgtgaca gtattagcga gtgggtcaca gcggcagata
      901 aaaagactgc agtggacatg tctggcggga cggtcacagt cctagagaaa gtcccggtat
      961 ccaaaggcca actgaagcag tatttctacg agaccaagtg taatcccatg ggttacacca
     1021 aggaaggctg caggggcata gacaaaaggc actggaactc gcaatgccga actacccaat
     1081 cgtatgttcg ggcccttact atggatagca aaaagagaat tggctggcga ttcataagga
     1141 tagacacttc ctgtgtatgt acactgacca ttaaaagggg aagatagtgg atttatgttg
     1201 tatagattat attgagacaa aattatctat ttgtatatat acataacagg gtaaattatt
     1261 cagttaagaa aaaataattt tatgaactgc atgtataaat gaagtttata cagtacagtg
     1321 gttctacaat ctatttattg gacatatcca tgacctgaaa ggaaacagtc atttgcgcac
     1381 aactttaaaa gtctgcatta cattcctcga taatgttgtg gtttgttgcc gttgccaaga
     1441 attgaaaaca aaaagtttaa aaaaaataat aataaattgc atgctgcttt aattgtgaat
     1501 tgataataaa ctgtccctct ttcagaaaac agattaaaaa aacaaaaaac aaaaaaaaaa
     1561 aaacaaaaaa caaaaacaaa aattggaacc aaaacattcc gtttacattt tagacactaa
     1621 gtatcttcgt tcttgttagt actctgtttt actgctttcg acttctgata gcgttggaat
     1681 taaaacaatg tcaaggtgct gttgtcattg ctttactggc gtaagggacg gggaatggga
     1741 ggggtagatt tctgtttgtt ttgtgtttta ttttgtttgt ttgtttgttt tgttttttag
     1801 ttccacccgg agtagggatg gagaaaattt cttcactatc cattctggtt gataaagcgt
     1861 tacatttgta tgttgtaaag atgtttgcaa aatccaatca gatgactgga aaacaaataa
     1921 aaattaaggc aactgaataa aatgctcaca ctccactgcc catgatgtat ctccctggtc
     1981 cccctcagct cactcttctg gcatgggtca gggaaaattg cttttattgg aaagaccagc
     2041 atttgttcaa agcatactct ttccctccct cctcccattt tggtcccttc tttttgtttt
     2101 gttttaagaa agaaaattaa gttgcgcgct ttaaaatatt ttactactgc tacaaacaga
     2161 tgaacaatgt gtgtcatttt atgacactca tggaaaacag tgattttttt ttaccctaaa
     2221 gaaaaacaaa taaaaataac ccaaaatatt ctttttttaa aaggcataaa tattgggtaa
     2281 attgtaatat ggcctaacag tgtttgcaga taaaagttat tgtatacacc cagatactta
     2341 gataagagca gggatccaca ctgccattga aataggactg aatggccctg cggaggctaa
     2401 gtggagctga catactattt cctggcagtg caggaggaat ttctgagtgg ccatcctaag
     2461 gtctaggatg gaggtgggga atggtacttg agacattcct aaaggaaggc tcggaagcac
     2521 ccttcagagc aggctctgga atgatgtgtc aagttgctta ggccttctgc tttaagtgcc
     2581 tacattacct aacagtgctc aagaggttct cgattggaga accacactca aatccattta
     2641 tagcctccat cccatttcta aataattgtg tataaagttg gattaacctg gagcaacttt
     2701 ggatccaaat atggcacagc aataatgata ttaatgcagc atgatgggaa atgtttgctg
     2761 tgaagagaat tgatttgctt tgagcttaga cttcaggaag cctaggtttt ttattttttt
     2821 atttttgaga cattttggta aaaggaaaaa aagaaaacaa acaaacaaac aaacaaaacc
     2881 agaaaaagca tcaaaactca ggcagaatga gcaatgtctg aaagggctag aaaaacaaga
     2941 catagcaagg tgctttcact gtgaaagaga caagaacaca ggaggaaata ttgcttcagt
     3001 gaagagcaca gacggctcct gccaatttat tacaagagtc ccgtctgtac tttacccttt
     3061 ggggttagaa gtcaagttgg aagcctgaat gaatggaccc aatgagaact agtgttaagc
     3121 ccatttccct agtcaggttt ttttcaagcg tgaatgtgtt agtggttact ctcctgggtt
     3181 cctgagcatc agaaaaaaaa aaaaaaagag gcaaacaatc gcttcatctt aggagtggaa
     3241 aggaaacaga agtggacgtc cgctgtgact cagggagtga agataccatc agcaaatagt
     3301 ttcttttttg ttcattcgtt cctttcgagt tagcctgtct tttggaatac cactgaatat
     3361 gctgtttttg aaagacttca tgtagcatag attgttttgt gccgtttacc aaattaacct
     3421 ttgtcatcgt tttttaacct attcaggaat gcttggaata tctgctctat gttaactttt
     3481 tgcagcttca ttctgagaga cattagtcaa acaaacaaaa ggatccccat cacaatctta
     3541 cagtactgca agggccaggt ctgttaatcg gcttcacagg agacatcagc aattgtgtgg
     3601 tcagtggctg gctctcttac ccactaagat acatcatagc tacatgttgg tggtttatgt
     3661 tgacctgaga tttatttgtt aaaatctctt cttcgtttct gttcgttctg gttctgttct
     3721 gttctgttct gttctgtttt ggttttaaag tcttgctgtg gtctcttgtt ggcagaaatg
     3781 ttttatgcat ggcagcaggc ctgttgcttt tttatagtga ttcccattga aactgtaagt
     3841 aaatgtctgt ggccttgttc tctctatggt aaagatatta ttcaccatgt aaaacaagaa
     3901 aaaatattta ttgtatttta gtatatttat ataattatgt tattgaaaaa attggcatta
     3961 aaacttaacc acatcagaag cctattgtaa atacaggttc tatttaagtg taccaattaa
     4021 catataatat atgttttaaa tatagaattt ttaatgtttt taaatatatt ttcaaagt
//
