LOCUS       NM_001285420            3743 bp    mRNA    linear   ROD 18-FEB-2025
DEFINITION  Mus musculus brain derived neurotrophic factor (Bdnf), transcript
            variant 9, mRNA.
ACCESSION   NM_001285420
VERSION     NM_001285420.1
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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 3743)
  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 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 (9) 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: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on 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 :: EF125682.1, SRR14995045.2173305.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139 [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-81                AL732477.10        138005-138085       c
            82-3743             AL732477.10        104069-107730       c
FEATURES             Location/Qualifiers
     source          1..3743
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 56.63 cM"
     gene            1..3743
                     /gene="Bdnf"
                     /note="brain derived neurotrophic factor"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
     exon            1..81
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     exon            82..3743
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     CDS             103..852
                     /gene="Bdnf"
                     /note="isoform 2 preproprotein is encoded by transcript
                     variant 9; proBDNF; neurotrophic factor BDNF precursor
                     form"
                     /codon_start=1
                     /product="neurotrophic factor BDNF precursor form isoform
                     2 preproprotein"
                     /protein_id="NP_001272349.1"
                     /db_xref="CCDS:CCDS38194.1"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
                     /translation="MTILFLTMVISYFGCMKAAPMKEVNVHGQGNLAYPGVRTHGTLE
                     SVNGPRAGSRGLTTTSLADTFEHVIEELLDEDQKVRPNEENHKDADLYTSRVMLSSQV
                     PLEPPLLFLLEEYKNYLDAANMSMRVRRHSDPARRGELSVCDSISEWVTAADKKTAVD
                     MSGGTVTVLEKVPVSKGQLKQYFYETKCNPMGYTKEGCRGIDKRHWNSQCRTTQSYVR
                     ALTMDSKKRIGWRFIRIDTSCVCTLTIKRGR"
     regulatory      1136..1141
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1164
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1344..1349
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      1364
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1577..1582
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AACAAA"
     regulatory      1581..1586
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1592
                     /gene="Bdnf"
     polyA_site      1620
                     /gene="Bdnf"
     regulatory      3622..3627
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      3644
                     /gene="Bdnf"
ORIGIN      
        1 aaaccataac cccgcacact ctgtgtagtt tcattgtgtg ttcgcttttt ctagctttgt
       61 ggtgcgggaa ggtgcgggaa gttccaccag gtgagaagag tgatgaccat ccttttcctt
      121 actatggtta tttcatactt cggttgcatg aaggcggcgc ccatgaaaga agtaaacgtc
      181 cacggacaag gcaacttggc ctacccaggt gtgcggaccc atgggactct ggagagcgtg
      241 aatgggccca gggcaggttc gagaggtctg acgacgacat cactggctga cacttttgag
      301 cacgtcatcg aagagctgct ggatgaggac cagaaggttc ggcccaacga agaaaaccat
      361 aaggacgcgg acttgtacac ttcccgggtg atgctcagca gtcaagtgcc tttggagcct
      421 cctctactct ttctgctgga ggaatacaaa aattacctgg atgccgcaaa catgtctatg
      481 agggttcggc gccactccga ccctgcccgc cgtggggagc tgagcgtgtg tgacagtatt
      541 agcgagtggg tcacagcggc agataaaaag actgcagtgg acatgtctgg cgggacggtc
      601 acagtcctag agaaagtccc ggtatccaaa ggccaactga agcagtattt ctacgagacc
      661 aagtgtaatc ccatgggtta caccaaggaa ggctgcaggg gcatagacaa aaggcactgg
      721 aactcgcaat gccgaactac ccaatcgtat gttcgggccc ttactatgga tagcaaaaag
      781 agaattggct ggcgattcat aaggatagac acttcctgtg tatgtacact gaccattaaa
      841 aggggaagat agtggattta tgttgtatag attatattga gacaaaatta tctatttgta
      901 tatatacata acagggtaaa ttattcagtt aagaaaaaat aattttatga actgcatgta
      961 taaatgaagt ttatacagta cagtggttct acaatctatt tattggacat atccatgacc
     1021 tgaaaggaaa cagtcatttg cgcacaactt taaaagtctg cattacattc ctcgataatg
     1081 ttgtggtttg ttgccgttgc caagaattga aaacaaaaag tttaaaaaaa ataataataa
     1141 attgcatgct gctttaattg tgaattgata ataaactgtc cctctttcag aaaacagatt
     1201 aaaaaaacaa aaaacaaaaa aaaaaaaaca aaaaacaaaa acaaaaattg gaaccaaaac
     1261 attccgttta cattttagac actaagtatc ttcgttcttg ttagtactct gttttactgc
     1321 tttcgacttc tgatagcgtt ggaattaaaa caatgtcaag gtgctgttgt cattgcttta
     1381 ctggcgtaag ggacggggaa tgggaggggt agatttctgt ttgttttgtg ttttattttg
     1441 tttgtttgtt tgttttgttt tttagttcca cccggagtag ggatggagaa aatttcttca
     1501 ctatccattc tggttgataa agcgttacat ttgtatgttg taaagatgtt tgcaaaatcc
     1561 aatcagatga ctggaaaaca aataaaaatt aaggcaactg aataaaatgc tcacactcca
     1621 ctgcccatga tgtatctccc tggtccccct cagctcactc ttctggcatg ggtcagggaa
     1681 aattgctttt attggaaaga ccagcatttg ttcaaagcat actctttccc tccctcctcc
     1741 cattttggtc ccttcttttt gttttgtttt aagaaagaaa attaagttgc gcgctttaaa
     1801 atattttact actgctacaa acagatgaac aatgtgtgtc attttatgac actcatggaa
     1861 aacagtgatt tttttttacc ctaaagaaaa acaaataaaa ataacccaaa atattctttt
     1921 tttaaaaggc ataaatattg ggtaaattgt aatatggcct aacagtgttt gcagataaaa
     1981 gttattgtat acacccagat acttagataa gagcagggat ccacactgcc attgaaatag
     2041 gactgaatgg ccctgcggag gctaagtgga gctgacatac tatttcctgg cagtgcagga
     2101 ggaatttctg agtggccatc ctaaggtcta ggatggaggt ggggaatggt acttgagaca
     2161 ttcctaaagg aaggctcgga agcacccttc agagcaggct ctggaatgat gtgtcaagtt
     2221 gcttaggcct tctgctttaa gtgcctacat tacctaacag tgctcaagag gttctcgatt
     2281 ggagaaccac actcaaatcc atttatagcc tccatcccat ttctaaataa ttgtgtataa
     2341 agttggatta acctggagca actttggatc caaatatggc acagcaataa tgatattaat
     2401 gcagcatgat gggaaatgtt tgctgtgaag agaattgatt tgctttgagc ttagacttca
     2461 ggaagcctag gttttttatt tttttatttt tgagacattt tggtaaaagg aaaaaaagaa
     2521 aacaaacaaa caaacaaaca aaaccagaaa aagcatcaaa actcaggcag aatgagcaat
     2581 gtctgaaagg gctagaaaaa caagacatag caaggtgctt tcactgtgaa agagacaaga
     2641 acacaggagg aaatattgct tcagtgaaga gcacagacgg ctcctgccaa tttattacaa
     2701 gagtcccgtc tgtactttac cctttggggt tagaagtcaa gttggaagcc tgaatgaatg
     2761 gacccaatga gaactagtgt taagcccatt tccctagtca ggtttttttc aagcgtgaat
     2821 gtgttagtgg ttactctcct gggttcctga gcatcagaaa aaaaaaaaaa aagaggcaaa
     2881 caatcgcttc atcttaggag tggaaaggaa acagaagtgg acgtccgctg tgactcaggg
     2941 agtgaagata ccatcagcaa atagtttctt ttttgttcat tcgttccttt cgagttagcc
     3001 tgtcttttgg aataccactg aatatgctgt ttttgaaaga cttcatgtag catagattgt
     3061 tttgtgccgt ttaccaaatt aacctttgtc atcgtttttt aacctattca ggaatgcttg
     3121 gaatatctgc tctatgttaa ctttttgcag cttcattctg agagacatta gtcaaacaaa
     3181 caaaaggatc cccatcacaa tcttacagta ctgcaagggc caggtctgtt aatcggcttc
     3241 acaggagaca tcagcaattg tgtggtcagt ggctggctct cttacccact aagatacatc
     3301 atagctacat gttggtggtt tatgttgacc tgagatttat ttgttaaaat ctcttcttcg
     3361 tttctgttcg ttctggttct gttctgttct gttctgttct gttttggttt taaagtcttg
     3421 ctgtggtctc ttgttggcag aaatgtttta tgcatggcag caggcctgtt gcttttttat
     3481 agtgattccc attgaaactg taagtaaatg tctgtggcct tgttctctct atggtaaaga
     3541 tattattcac catgtaaaac aagaaaaaat atttattgta ttttagtata tttatataat
     3601 tatgttattg aaaaaattgg cattaaaact taaccacatc agaagcctat tgtaaataca
     3661 ggttctattt aagtgtacca attaacatat aatatatgtt ttaaatatag aatttttaat
     3721 gtttttaaat atattttcaa agt
//
