LOCUS       NM_199713               3145 bp    mRNA    linear   VRT 25-FEB-2025
DEFINITION  Danio rerio calreticulin (calr), mRNA.
ACCESSION   NM_199713
VERSION     NM_199713.2
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 3145)
  AUTHORS   Zhou,C., Li,M., Sun,Y., Sultan,Y. and Li,X.
  TITLE     Systematic Identification of Long Noncoding RNAs during Three Key
            Organogenesis Stages in Zebrafish
  JOURNAL   Int J Mol Sci 25 (6), 3440 (2024)
   PUBMED   38542412
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3145)
  AUTHORS   Pozo-Morales,M., Garteizgogeascoa,I., Perazzolo,C., So,J., Shin,D.
            and Singh,S.P.
  TITLE     In vivo imaging of calcium dynamics in zebrafish hepatocytes
  JOURNAL   Hepatology 77 (3), 789-801 (2023)
   PUBMED   35829917
REFERENCE   3  (bases 1 to 3145)
  AUTHORS   Haws,W., England,S., Grieb,G., Susana,G., Hernandez,S., Mirer,H.
            and Lewis,K.
  TITLE     Analyses of binding partners and functional domains for the
            developmentally essential protein Hmx3a/HMX3
  JOURNAL   Sci Rep 13 (1), 1151 (2023)
   PUBMED   36670152
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3145)
  AUTHORS   Uszczynska-Ratajczak,B., Sugunan,S., Kwiatkowska,M., Migdal,M.,
            Carbonell-Sala,S., Sokol,A., Winata,C.L. and Chacinska,A.
  TITLE     Profiling subcellular localization of nuclear-encoded mitochondrial
            gene products in zebrafish
  JOURNAL   Life Sci Alliance 6 (1), e202201514 (2022)
   PUBMED   36283702
  REMARK    Erratum:[Life Sci Alliance. 2024 Feb 12;7(5):e202402628. doi:
            10.26508/lsa.202402628. PMID: 38346814]
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3145)
  AUTHORS   Wattrus,S.J., Smith,M.L., Rodrigues,C.P., Hagedorn,E.J., Kim,J.W.,
            Budnik,B. and Zon,L.I.
  TITLE     Quality assurance of hematopoietic stem cells by macrophages
            determines stem cell clonality
  JOURNAL   Science 377 (6613), 1413-1419 (2022)
   PUBMED   36137040
REFERENCE   6  (bases 1 to 3145)
  AUTHORS   George,A.A., Hayden,S., Holzhausen,L.C., Ma,E.Y., Suzuki,S.C. and
            Brockerhoff,S.E.
  TITLE     Synaptojanin 1 is required for endolysosomal trafficking of
            synaptic proteins in cone photoreceptor inner segments
  JOURNAL   PLoS One 9 (1), e84394 (2014)
   PUBMED   24392132
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3145)
  AUTHORS   Lin,C., Lin,C.N., Wang,Y.C., Liu,F.Y., Chien,Y.W., Chuang,Y.J.,
            Lan,C.Y., Hsieh,W.P. and Chen,B.S.
  TITLE     Robustness analysis on interspecies interaction network for iron
            and glucose competition between Candida albicans and zebrafish
            during infection
  JOURNAL   BMC Syst Biol 8 Suppl 5 (Suppl 5), S6 (2014)
   PUBMED   25603810
REFERENCE   8  (bases 1 to 3145)
  AUTHORS   Tao,T., Shi,H., Huang,D. and Peng,J.
  TITLE     Def functions as a cell autonomous factor in organogenesis of
            digestive organs in zebrafish
  JOURNAL   PLoS One 8 (4), e58858 (2013)
   PUBMED   23593122
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 3145)
  AUTHORS   Li,Q., Ritter,D., Yang,N., Dong,Z., Li,H., Chuang,J.H. and Guo,S.
  TITLE     A systematic approach to identify functional motifs within
            vertebrate developmental enhancers
  JOURNAL   Dev Biol 337 (2), 484-495 (2010)
   PUBMED   19850031
REFERENCE   10 (bases 1 to 3145)
  AUTHORS   Woods,I.G., Wilson,C., Friedlander,B., Chang,P., Reyes,D.K.,
            Nix,R., Kelly,P.D., Chu,F., Postlethwait,J.H. and Talbot,W.S.
  TITLE     The zebrafish gene map defines ancestral vertebrate chromosomes
  JOURNAL   Genome Res 15 (9), 1307-1314 (2005)
   PUBMED   16109975
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CU467861.7 and EH505639.1.
            
            On Jun 19, 2015 this sequence version replaced NM_199713.1.
            
            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 :: GFIL01002922.1, BC057469.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA3505372,
                                           SAMEA3505374 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-190               CU467861.7         54631-54820
            191-393             EH505639.1         197-399
            394-394             CU467861.7         58741-58741
            395-591             EH505639.1         401-597
            592-592             CU467861.7         59028-59028
            593-960             EH505639.1         599-966
            961-988             CU467861.7         59687-59714
            989-1132            CU467861.7         63040-63183
            1133-1225           CU467861.7         63281-63373
            1226-3145           CU467861.7         63496-65415
FEATURES             Location/Qualifiers
     source          1..3145
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="8"
                     /map="8"
     gene            1..3145
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /note="calreticulin"
                     /db_xref="GeneID:325317"
                     /db_xref="ZFIN:ZDB-GENE-030131-4042"
     exon            1..263
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    143..145
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /note="upstream in-frame stop codon"
     CDS             170..1423
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /note="calreticulin, like 2"
                     /codon_start=1
                     /product="calreticulin precursor"
                     /protein_id="NP_956007.2"
                     /db_xref="GeneID:325317"
                     /db_xref="ZFIN:ZDB-GENE-030131-4042"
                     /translation="

MTALSLLFMAVSVALITAESNVYFREQFEDGDSWRSRWVESKHKTDYGKFVLSAGKFYGDAEKDKGLQTSQDAHFYAMSARFGDFNNKDQPLVIQFSVKHEQNIDCGGGYIKLFPSDLNQEDMHGDSTYNIMFGPDICGPGTKKVHVIFNYKGKNHLINKDIRCKDDEYSHLYTLIVNPDNTYEVKIDNKKVESGSLEEDWDFLPSKKIKDPEAKKPEDWDEREKIDDPEDQKPEEWDKPENIPDPDAKKPDDWDEEMDGEWEPPMVTNPDYKGEWKPRQIDNPAYKGKWVHPEIDNPEYTADSEIYKYDSIGVIGLDLWQVKSGTIFDNFLITNDPKLAEEVGTETWGATKDAEKKMKESQEEEDRKKHDEEEKSRKEEAKEEEEEEKEEEDEEEEEEEEEEDEEEETDSKLKDEL"

     sig_peptide     170..223
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="COORDINATES: ab initio prediction:SignalP:6.0"
     misc_feature    239..1168
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /note="Calreticulin family; Region: Calreticulin;
                     pfam00262"
                     /db_xref="CDD:459737"
     exon            264..365
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            366..569
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            570..664
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            665..874
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            875..988
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            989..1132
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            1133..1225
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
     exon            1226..3145
                     /gene="calr"
                     /gene_synonym="calrl2; fc66d10; wu:fc66d10; wu:fj50c03;
                     zgc:66153"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ctagaggcgagactgtgcgaaagacagcagtgaacggtgatttctgcaggcatgtgaagatccaaacagaccgcatcattcttgcaagtctcatacttcttatcaaaacatattttctcaatactttactattgtacgttcctgaaagggggtatattttagtgcaaagatgactgcgttatccctactgtttatggccgtgtccgtcgctttaataaccgcagagtccaatgtttatttccgagagcaatttgaagacggagacagctggaggagccgatgggtggaatccaagcataagaccgactatgggaagtttgtgctttctgcaggcaaattttatggcgatgctgagaaagataagggtcttcagaccagtcaggatgctcatttctatgcgatgtccgctcgctttggtgatttcaacaacaaggatcagcctctcgtgatccagtttagtgtaaaacacgagcagaacattgactgtggcggaggctacatcaaacttttcccatcagacctcaatcaggaagacatgcatggagactccacatataacatcatgtttggtcctgacatctgtggccctggtactaagaaagtacatgttatcttcaattacaaaggcaaaaatcatttgatcaacaaagatattagatgcaaggatgatgaatacagccatctgtacacattaattgtcaatcctgacaacacatatgaagtcaagattgataataagaaggtcgaatctggatctttggaagaagactgggacttcctgccttccaaaaagatcaaagatcccgaagccaaaaagcctgaagactgggacgagagggagaagattgatgaccctgaagaccagaaaccagaggaatgggacaaacctgagaacattcctgatcctgatgccaagaagcctgatgactgggatgaagagatggacggagagtgggaaccaccaatggtcaccaatcctgattacaagggtgagtggaaaccccgccagatcgacaatcctgcttacaaggggaaatgggtgcaccctgagattgataacccagaatacactgctgacagcgagatctataaatacgacagcatcggagtgatcggactggacttgtggcaggtgaagtctggcacaattttcgacaacttcctaattaccaacgaccccaagttggcagaagaggtcggcactgagacttggggagccacaaaagatgctgaaaagaaaatgaaggaaagccaagaagaggaagacagaaagaaacatgatgaagaggaaaagtcaagaaaggaggaggcaaaggaggaagaggaagaagagaaggaagaggaagatgaagaggaggaagaagaagaagaagaggaggacgaggaggaggaaacagactctaaactcaaagacgagttgtagatttcaacgggaactaatgaagaacgcctcatgactgatggggtgcaggaaaaagaactggacttatgctggacattcctttactttttggttgtgtgatggattcttctgctgttttttttttgtcccttctcactactacaaaactatttatcgattaactttgtgataattttcattcttattttgtcaggtctctaagagtttcagtcagggagagtaaaagggagctaatgtgacacaacagacccacgcctgtacgtaatatcgtaggaattcagcgctcttgtttacaaatgatttcagatatcctgcttgctaagcaattctgtgtgacacaaaacttgaatcataaccatcatcagctggtagctacaattctcagattacctcagacacaacatttactttttgttaatattgttgagcagttttgaggtacttttgccactattttgtctccatttcacagctgttacagaatataggaaagcggtttagatctcctctgcagcattttggcttgacacagttttgtttgtgtgtttgtcttagagaaagcgagagagagagttttcattcattcattacctcatacttgctctgtctatttgtaatcaggtttaaacaaatctttgtcatggtttcctgaaaacacagaggatctcacaagctctagtcaacaaaaatcaaaatgtgcacttacatgctttgcagtaagcattaaactgaagaatttccacatcctactaatctgaatgcttggttaaagccaatccgcatcaacaacagttcctctgagtctcttcaaatcttatttgtttgtccttttaatgagtttagcaaatgtggcaatcagggaatctgtggggtgatgagaaacccaaagcttgtaagattccaagggtgttggaggaaggttcctcaatggttgtagtaacatgtctcctctccaactcattgctctagccattgtgaagattgcactgctgcttcggtcagataagcaaaatagattgtgaccttttttttttaaagatatattttgtactttttgtcttctgaaggatgttctttgacattgagaaagaaaagctctggtatgacagttgttgtcccaataataaaactacaaaaagagtaagatacccaacccaagtgtcctgaataaatatttatttgtaaaaaaattaaccaaataagttatgctcaaactaaacattccctaagactatatatttctaatcatttattttagattttcagtcttgatgttgttgttttctaaatgtaaattataacttcagcggaaaatataaaggaataatatttttttccagtcattaaattgaaaaccaattttcacaatgattttttatgatttaaaatgtaaatcaatcaaattaaatgtttagcagactttttgaaatattactaatgtggtgttctatttgatcggcattgtgcaatgaaaaattatatcacaaattatcatgaacaaacgttttgttaatcaggtttcaactaattttaactttagttaaagtattcttacaagattgatgtaagttgagacgattagaaaagtaattagacgattaaaaagtaattgtgtttgttcaaaactagattaaaagtgtatctcgcacataaatgctacatcgtggtggtgtcaggtgacaataattgtaacactttactaaataaaaagtttacattcta

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