LOCUS       NM_001309820            1708 bp    mRNA    linear   ROD 03-JUL-2024
DEFINITION  Rattus norvegicus chitinase 3 like 1 (Chi3l1), transcript variant
            1, mRNA.
ACCESSION   NM_001309820 XM_006249892
VERSION     NM_001309820.1
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 1708)
  AUTHORS   Tang,T., Gao,J., Pan,X., Tang,Q., Long,H. and Liu,Z.
  TITLE     YKL-40 Knockdown Decreases Oxidative Stress Damage in Ovarian
            Granulosa Cells
  JOURNAL   Genet Test Mol Biomarkers 28 (5), 199-206 (2024)
   PUBMED   38634621
  REMARK    GeneRIF: YKL-40 Knockdown Decreases Oxidative Stress Damage in
            Ovarian Granulosa Cells.
REFERENCE   2  (bases 1 to 1708)
  AUTHORS   Li,L., Wei,K., Ding,Y., Ahati,P., Xu,H., Fang,H. and Wang,H.
  TITLE     M2a Macrophage-Secreted CHI3L1 Promotes Extracellular Matrix
            Metabolic Imbalances via Activation of IL-13Ralpha2/MAPK Pathway in
            Rat Intervertebral Disc Degeneration
  JOURNAL   Front Immunol 12, 666361 (2021)
   PUBMED   34168643
  REMARK    GeneRIF: M2a Macrophage-Secreted CHI3L1 Promotes Extracellular
            Matrix Metabolic Imbalances via Activation of IL-13Ralpha2/MAPK
            Pathway in Rat Intervertebral Disc Degeneration.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1708)
  AUTHORS   Li,Z.X., Yang,D.J., Huo,Z.K., Wen,P.H., Hu,B.W., Wang,Z.H.,
            Guo,W.Z. and Zhang,S.J.
  TITLE     Effects of chitinase-3-like protein 1 on brain death-induced
            hepatocyte apoptosis via PAR2-JNK-caspase-3
  JOURNAL   Biochem Biophys Res Commun 552, 150-156 (2021)
   PUBMED   33744763
  REMARK    GeneRIF: Effects of chitinase-3-like protein 1 on brain
            death-induced hepatocyte apoptosis via PAR2-JNK-caspase-3.
REFERENCE   4  (bases 1 to 1708)
  AUTHORS   Tan,H., Yao,H., Lie,Z., Chen,G., Lin,S. and Zhang,Y.
  TITLE     MicroRNA-30a-5p promotes proliferation and inhibits apoptosis of
            human pulmonary artery endothelial cells under hypoxia by targeting
            YKL-40
  JOURNAL   Mol Med Rep 20 (1), 236-244 (2019)
   PUBMED   31115541
  REMARK    GeneRIF: the data indicated that miR30a5p promoted cell growth and
            inhibited apoptosis of human pulmonary artery endothelial cells
            under hypoxia by targeting YKL40. Therefore, the miR30a5p/YKL40
            axis may provide a potential target for the development of novel
            Pulmonary arterial hypertension (PAH) therapies.
REFERENCE   5  (bases 1 to 1708)
  AUTHORS   Jiang,L., Xu,D., Zhang,W.J., Tang,Y. and Peng,Y.
  TITLE     Astrocytes induce proliferation of oligodendrocyte progenitor cells
            via connexin 47-mediated activation of Chi3l1 expression
  JOURNAL   Eur Rev Med Pharmacol Sci 23 (7), 3012-3020 (2019)
   PUBMED   31002152
  REMARK    GeneRIF: Astrocytes induce proliferation of oligodendrocyte
            progenitor cells via connexin 47-mediated activation of Chi3l1
            expression.
REFERENCE   6  (bases 1 to 1708)
  AUTHORS   Nordenbaek,C., Johansen,J.S., Junker,P., Borregaard,N., Sorensen,O.
            and Price,P.A.
  TITLE     YKL-40, a matrix protein of specific granules in neutrophils, is
            elevated in serum of patients with community-acquired pneumonia
            requiring hospitalization
  JOURNAL   J Infect Dis 180 (5), 1722-1726 (1999)
   PUBMED   10515841
REFERENCE   7  (bases 1 to 1708)
  AUTHORS   Johansen,J.S., Stoltenberg,M., Hansen,M., Florescu,A.,
            Horslev-Petersen,K., Lorenzen,I. and Price,P.A.
  TITLE     Serum YKL-40 concentrations in patients with rheumatoid arthritis:
            relation to disease activity
  JOURNAL   Rheumatology (Oxford) 38 (7), 618-626 (1999)
   PUBMED   10461474
REFERENCE   8  (bases 1 to 1708)
  AUTHORS   Boot,R.G., van Achterberg,T.A., van Aken,B.E., Renkema,G.H.,
            Jacobs,M.J., Aerts,J.M. and de Vries,C.J.
  TITLE     Strong induction of members of the chitinase family of proteins in
            atherosclerosis: chitotriosidase and human cartilage gp-39
            expressed in lesion macrophages
  JOURNAL   Arterioscler Thromb Vasc Biol 19 (3), 687-694 (1999)
   PUBMED   10073974
REFERENCE   9  (bases 1 to 1708)
  AUTHORS   Renkema,G.H., Boot,R.G., Au,F.L., Donker-Koopman,W.E.,
            Strijland,A., Muijsers,A.O., Hrebicek,M. and Aerts,J.M.
  TITLE     Chitotriosidase, a chitinase, and the 39-kDa human cartilage
            glycoprotein, a chitin-binding lectin, are homologues of family 18
            glycosyl hydrolases secreted by human macrophages
  JOURNAL   Eur J Biochem 251 (1-2), 504-509 (1998)
   PUBMED   9492324
REFERENCE   10 (bases 1 to 1708)
  AUTHORS   Hakala,B.E., White,C. and Recklies,A.D.
  TITLE     Human cartilage gp-39, a major secretory product of articular
            chondrocytes and synovial cells, is a mammalian member of a
            chitinase protein family
  JOURNAL   J Biol Chem 268 (34), 25803-25810 (1993)
   PUBMED   8245017
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000013.1 and BC091365.1.
            
            On Jun 16, 2015 this sequence version replaced XM_006249892.2.
            
            Transcript Variant: This variant (1) represents the longer
            tanscript and encodes the longer isoform (1).
            
            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 :: SRR26643292.49064.1,
                                           SRR22582424.1337520.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760393, SAMEA5760433
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-101               JAXUCZ010000013.1  48194132-48194232
            102-1708            BC091365.1         82-1688
FEATURES             Location/Qualifiers
     source          1..1708
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="13"
                     /map="13q13"
     gene            1..1708
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /note="chitinase 3 like 1"
                     /db_xref="GeneID:89824"
                     /db_xref="RGD:620874"
     exon            1..101
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     CDS             53..1228
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; chitinase-3-like protein 1; chitinase 3-like 1
                     protein; cartilage glycoprotein 39; chitinase 3-like 1
                     (cartilage glycoprotein-39)"
                     /codon_start=1
                     /product="chitinase-3-like protein 1 isoform 1 precursor"
                     /protein_id="NP_001296749.1"
                     /db_xref="GeneID:89824"
                     /db_xref="RGD:620874"
                     /translation="MCTSAEARMGMRVALTGFAVLMLLQSCSAYKLVCYYTNWSQYRE
                     GNGSCFPDALDHSLCTHIIYSFANISNNKLSTSEWNDVTLYGMLNTLKTRNPRLKTLL
                     SVGGWSFGSERFSRIVSNAKSRKTFVQSVAPFLRTYGFDGLDLAWLYPGPKDKQHFTT
                     LIKELKAEFTKEVQPGTEKLLLSAAVSAGKVTLDSGYDVAQIAQHLDFINLMTYDFHG
                     TWRHTTGHHSPLFRGQQDTGPDRFSNVDYGVGYMLRLGAPTNKLVMGIPTFGKSFTLA
                     SSENQVGAPITGSGLPGRYTKEKGTLAYYEICDFLRGAEVHRILGQQVPFATKGNQWV
                     GYDDPESVKNKVKYLKNKQLAGAMVWAVDLDDFRGSFCGHNVHFPLTNAIKEALAVA"
     exon            102..131
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            132..333
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            334..390
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            391..541
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            542..663
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            664..787
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            788..970
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            971..1087
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
     exon            1088..1678
                     /gene="Chi3l1"
                     /gene_synonym="CGP-39; Chil1; GP-39; YKL-40; YKL40"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 agtataagga agaggccctg aacaggaaac tgggtgctac gagaagctgt caatgtgcac
       61 ctctgctgaa gccaggatgg gcatgagggt agcactgaca ggctttgcgg tcctgatgct
      121 gctccagagc tgctctgcgt acaaactggt ctgctactac accaactggt cccagtaccg
      181 ggaaggcaat gggagctgct tcccagatgc cctcgaccat tccctgtgca cccatatcat
      241 ctacagcttt gccaacatca gcaacaacaa gctcagcaca tcggagtgga atgacgtaac
      301 cctgtatggc atgctgaata ctctcaagac cagaaacccc agactgaaga cactgctgtc
      361 tgttggagga tggagctttg gctcagaaag attttccagg attgtctcca acgctaagag
      421 tcgcaagact ttcgtccagt cggtagctcc cttcctgcgg acctatggct ttgatggact
      481 ggatctcgcc tggctctacc cgggcccgaa agacaagcaa cattttacca cactgatcaa
      541 ggaactgaag gcggaattca caaaggaagt ccagccaggc acagagaaac tcctgctcag
      601 tgctgccgtg tcagcaggaa aggtgaccct tgacagtggc tatgatgttg cccagatagc
      661 ccaacaccta gatttcatta atctcatgac ctatgatttc catggaacct ggcgccacac
      721 cacaggacat cacagccccc tcttccgagg ccagcaggac actgggcctg acagattcag
      781 caatgtggac tatggtgtgg ggtacatgct aaggctggga gcccccacca acaagctagt
      841 gatgggtatc cccacctttg gaaagagctt cactctggca tcttctgaga atcaagtggg
      901 agctccaatc acagggtcag gattaccagg ccgctacacc aaggagaaag ggaccctcgc
      961 ctactacgag atatgcgact tcctcagagg agctgaagta catagaattc ttggccagca
     1021 ggttcccttt gctaccaagg gcaaccagtg ggtggggtat gatgacccgg agagcgtcaa
     1081 aaacaaggtg aagtacctga agaacaagca gctggcagga gccatggtgt gggcagtgga
     1141 tttggatgat ttccggggct ccttctgtgg gcataacgta cacttcccgc tcaccaacgc
     1201 catcaaggag gccctggctg tggcttagct ccccctttcc cacatgctcc ccccaccctc
     1261 cggccaggag tctggtcact tgcaatgcta agtcccccga ctgggtgtca gtttccctcc
     1321 cttggaacct gtgtaggggg ccacagcagg ctcggacctg gtgaacaggg aaatagggta
     1381 ggacggtggg attgtgaaag tcaccgtgtg agatagatac aggtcatccc tgttaatgaa
     1441 tgcaaattct caaggctctt aactcccttt cccctatctc tcccgaccaa aggacaccaa
     1501 ttttggcaag ttatagcatc aagtaggcac acatcttaca ggattcaggg accatactaa
     1561 ttataccttc tgcaaagccc aacttgaaac cttcccttag gaacttaatc gtctctctgt
     1621 cccacttccc tttccctaat tccacagctg ctcaataaag tgccagagct taacagtgaa
     1681 aaaaaaaaaa aaaaaaaaaa aaaaaaaa
//
