LOCUS       NM_001048142            4009 bp    mRNA    linear   ROD 18-FEB-2025
DEFINITION  Mus musculus brain derived neurotrophic factor (Bdnf), transcript
            variant 4, mRNA.
ACCESSION   NM_001048142
VERSION     NM_001048142.1
KEYWORDS    RefSeq; RefSeq Select.
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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 4009)
  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 AY057914.1 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 (4) 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.
            
            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 :: EF125674.1, AK033127.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1492              AY057914.1         1-1492
            1493-4009           AL732477.10        104069-106585       c
FEATURES             Location/Qualifiers
     source          1..4009
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 56.63 cM"
     gene            1..4009
                     /gene="Bdnf"
                     /note="brain derived neurotrophic factor"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
     exon            1..347
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     exon            348..4009
                     /gene="Bdnf"
                     /inference="alignment:Splign:2.1.0"
     CDS             369..1118
                     /gene="Bdnf"
                     /note="isoform 2 preproprotein is encoded by transcript
                     variant 4; proBDNF; neurotrophic factor BDNF precursor
                     form"
                     /codon_start=1
                     /product="neurotrophic factor BDNF precursor form isoform
                     2 preproprotein"
                     /protein_id="NP_001041607.1"
                     /db_xref="CCDS:CCDS38194.1"
                     /db_xref="GeneID:12064"
                     /db_xref="MGI:MGI:88145"
                     /translation="MTILFLTMVISYFGCMKAAPMKEVNVHGQGNLAYPGVRTHGTLE
                     SVNGPRAGSRGLTTTSLADTFEHVIEELLDEDQKVRPNEENHKDADLYTSRVMLSSQV
                     PLEPPLLFLLEEYKNYLDAANMSMRVRRHSDPARRGELSVCDSISEWVTAADKKTAVD
                     MSGGTVTVLEKVPVSKGQLKQYFYETKCNPMGYTKEGCRGIDKRHWNSQCRTTQSYVR
                     ALTMDSKKRIGWRFIRIDTSCVCTLTIKRGR"
     regulatory      1402..1407
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1430
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1610..1615
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      1630
                     /gene="Bdnf"
                     /note="major polyA site"
     regulatory      1843..1848
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AACAAA"
     regulatory      1847..1852
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: AATAAA"
     polyA_site      1858
                     /gene="Bdnf"
     polyA_site      1886
                     /gene="Bdnf"
     regulatory      3888..3893
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bdnf"
                     /note="hexamer: ATTAAA"
     polyA_site      3910
                     /gene="Bdnf"
ORIGIN      
        1 ccaatcgaag ctcaaccgaa gagctaaata atgtctgacc ccagtgcctg gctctggctg
       61 agctctgggt gcccgtcgct gctgccgtgc cggggcgcac ccgctggctg gctgtcgcac
      121 ggttcccagt gcgcccggga ctcccgggct tggagaagga aaccgcctgg ggcggcgcgc
      181 cacctccgcc tgggaggctt tgatgagacc cggttccttc aactgccacc actgccttgg
      241 ggcagacgag aaagcgcacg gggcccaggg cagggcgcag ggaccagaag cgtgacaaca
      301 atgtgactcc actgccgggg atccgagagc tttgtgtgga ccctgagttc caccaggtga
      361 gaagagtgat gaccatcctt ttccttacta tggttatttc atacttcggt tgcatgaagg
      421 cggcgcccat gaaagaagta aacgtccacg gacaaggcaa cttggcctac ccaggtgtgc
      481 ggacccatgg gactctggag agcgtgaatg ggcccagggc aggttcgaga ggtctgacga
      541 cgacatcact ggctgacact tttgagcacg tcatcgaaga gctgctggat gaggaccaga
      601 aggttcggcc caacgaagaa aaccataagg acgcggactt gtacacttcc cgggtgatgc
      661 tcagcagtca agtgcctttg gagcctcctc tactctttct gctggaggaa tacaaaaatt
      721 acctggatgc cgcaaacatg tctatgaggg ttcggcgcca ctccgaccct gcccgccgtg
      781 gggagctgag cgtgtgtgac agtattagcg agtgggtcac agcggcagat aaaaagactg
      841 cagtggacat gtctggcggg acggtcacag tcctagagaa agtcccggta tccaaaggcc
      901 aactgaagca gtatttctac gagaccaagt gtaatcccat gggttacacc aaggaaggct
      961 gcaggggcat agacaaaagg cactggaact cgcaatgccg aactacccaa tcgtatgttc
     1021 gggcccttac tatggatagc aaaaagagaa ttggctggcg attcataagg atagacactt
     1081 cctgtgtatg tacactgacc attaaaaggg gaagatagtg gatttatgtt gtatagatta
     1141 tattgagaca aaattatcta tttgtatata tacataacag ggtaaattat tcagttaaga
     1201 aaaaataatt ttatgaactg catgtataaa tgaagtttat acagtacagt ggttctacaa
     1261 tctatttatt ggacatatcc atgacctgaa aggaaacagt catttgcgca caactttaaa
     1321 agtctgcatt acattcctcg ataatgttgt ggtttgttgc cgttgccaag aattgaaaac
     1381 aaaaagttta aaaaaaataa taataaattg catgctgctt taattgtgaa ttgataataa
     1441 actgtccctc tttcagaaaa cagattaaaa aaacaaaaaa caaaaaaaaa aaaacaaaaa
     1501 acaaaaacaa aaattggaac caaaacattc cgtttacatt ttagacacta agtatcttcg
     1561 ttcttgttag tactctgttt tactgctttc gacttctgat agcgttggaa ttaaaacaat
     1621 gtcaaggtgc tgttgtcatt gctttactgg cgtaagggac ggggaatggg aggggtagat
     1681 ttctgtttgt tttgtgtttt attttgtttg tttgtttgtt ttgtttttta gttccacccg
     1741 gagtagggat ggagaaaatt tcttcactat ccattctggt tgataaagcg ttacatttgt
     1801 atgttgtaaa gatgtttgca aaatccaatc agatgactgg aaaacaaata aaaattaagg
     1861 caactgaata aaatgctcac actccactgc ccatgatgta tctccctggt ccccctcagc
     1921 tcactcttct ggcatgggtc agggaaaatt gcttttattg gaaagaccag catttgttca
     1981 aagcatactc tttccctccc tcctcccatt ttggtccctt ctttttgttt tgttttaaga
     2041 aagaaaatta agttgcgcgc tttaaaatat tttactactg ctacaaacag atgaacaatg
     2101 tgtgtcattt tatgacactc atggaaaaca gtgatttttt tttaccctaa agaaaaacaa
     2161 ataaaaataa cccaaaatat tcttttttta aaaggcataa atattgggta aattgtaata
     2221 tggcctaaca gtgtttgcag ataaaagtta ttgtatacac ccagatactt agataagagc
     2281 agggatccac actgccattg aaataggact gaatggccct gcggaggcta agtggagctg
     2341 acatactatt tcctggcagt gcaggaggaa tttctgagtg gccatcctaa ggtctaggat
     2401 ggaggtgggg aatggtactt gagacattcc taaaggaagg ctcggaagca cccttcagag
     2461 caggctctgg aatgatgtgt caagttgctt aggccttctg ctttaagtgc ctacattacc
     2521 taacagtgct caagaggttc tcgattggag aaccacactc aaatccattt atagcctcca
     2581 tcccatttct aaataattgt gtataaagtt ggattaacct ggagcaactt tggatccaaa
     2641 tatggcacag caataatgat attaatgcag catgatggga aatgtttgct gtgaagagaa
     2701 ttgatttgct ttgagcttag acttcaggaa gcctaggttt tttatttttt tatttttgag
     2761 acattttggt aaaaggaaaa aaagaaaaca aacaaacaaa caaacaaaac cagaaaaagc
     2821 atcaaaactc aggcagaatg agcaatgtct gaaagggcta gaaaaacaag acatagcaag
     2881 gtgctttcac tgtgaaagag acaagaacac aggaggaaat attgcttcag tgaagagcac
     2941 agacggctcc tgccaattta ttacaagagt cccgtctgta ctttaccctt tggggttaga
     3001 agtcaagttg gaagcctgaa tgaatggacc caatgagaac tagtgttaag cccatttccc
     3061 tagtcaggtt tttttcaagc gtgaatgtgt tagtggttac tctcctgggt tcctgagcat
     3121 cagaaaaaaa aaaaaaaaga ggcaaacaat cgcttcatct taggagtgga aaggaaacag
     3181 aagtggacgt ccgctgtgac tcagggagtg aagataccat cagcaaatag tttctttttt
     3241 gttcattcgt tcctttcgag ttagcctgtc ttttggaata ccactgaata tgctgttttt
     3301 gaaagacttc atgtagcata gattgttttg tgccgtttac caaattaacc tttgtcatcg
     3361 ttttttaacc tattcaggaa tgcttggaat atctgctcta tgttaacttt ttgcagcttc
     3421 attctgagag acattagtca aacaaacaaa aggatcccca tcacaatctt acagtactgc
     3481 aagggccagg tctgttaatc ggcttcacag gagacatcag caattgtgtg gtcagtggct
     3541 ggctctctta cccactaaga tacatcatag ctacatgttg gtggtttatg ttgacctgag
     3601 atttatttgt taaaatctct tcttcgtttc tgttcgttct ggttctgttc tgttctgttc
     3661 tgttctgttt tggttttaaa gtcttgctgt ggtctcttgt tggcagaaat gttttatgca
     3721 tggcagcagg cctgttgctt ttttatagtg attcccattg aaactgtaag taaatgtctg
     3781 tggccttgtt ctctctatgg taaagatatt attcaccatg taaaacaaga aaaaatattt
     3841 attgtatttt agtatattta tataattatg ttattgaaaa aattggcatt aaaacttaac
     3901 cacatcagaa gcctattgta aatacaggtt ctatttaagt gtaccaatta acatataata
     3961 tatgttttaa atatagaatt tttaatgttt ttaaatatat tttcaaagt
//
