LOCUS       NM_131047               1626 bp    mRNA    linear   VRT 23-MAR-2025
DEFINITION  Danio rerio calreticulin 3a (calr3a), mRNA.
ACCESSION   NM_131047 XM_009295936
VERSION     NM_131047.2
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 1626)
  AUTHORS   Pessoa Rodrigues,C., Collins,J.M., Yang,S., Martinez,C., Kim,J.W.,
            Lama,C., Nam,A.S., Alt,C., Lin,C. and Zon,L.I.
  TITLE     Transcripts of repetitive DNA elements signal to block phagocytosis
            of hematopoietic stem cells
  JOURNAL   Science 385 (6714), eadn1629 (2024)
   PUBMED   39264994
REFERENCE   2  (bases 1 to 1626)
  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 1626)
  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   4  (bases 1 to 1626)
  AUTHORS   Grimholt,U.
  TITLE     Whole genome duplications have provided teleosts with many roads to
            peptide loaded MHC class I molecules
  JOURNAL   BMC Evol Biol 18 (1), 25 (2018)
   PUBMED   29471808
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1626)
  AUTHORS   Sun,Y., Wang,Q., Fang,Y., Wu,C., Lu,G. and Chen,Z.
  TITLE     Activation of the Nkx2.5-Calr-p53 signaling pathway by
            hyperglycemia induces cardiac remodeling and dysfunction in adult
            zebrafish
  JOURNAL   Dis Model Mech 10 (10), 1217-1227 (2017)
   PUBMED   28801532
REFERENCE   6  (bases 1 to 1626)
  AUTHORS   Howarth,D.L., Lindtner,C., Vacaru,A.M., Sachidanandam,R.,
            Tsedensodnom,O., Vasilkova,T., Buettner,C. and Sadler,K.C.
  TITLE     Activating transcription factor 6 is necessary and sufficient for
            alcoholic fatty liver disease in zebrafish
  JOURNAL   PLoS Genet 10 (5), e1004335 (2014)
   PUBMED   24874946
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 1626)
  AUTHORS   Hung,I.C., Cherng,B.W., Hsu,W.M. and Lee,S.J.
  TITLE     Calnexin is required for zebrafish posterior lateral line
            development
  JOURNAL   Int J Dev Biol 57 (5), 427-438 (2013)
   PUBMED   23873374
REFERENCE   8  (bases 1 to 1626)
  AUTHORS   Yang,D., Liu,Q., Yang,M., Wu,H., Wang,Q., Xiao,J. and Zhang,Y.
  TITLE     RNA-seq liver transcriptome analysis reveals an activated MHC-I
            pathway and an inhibited MHC-II pathway at the early stage of
            vaccine immunization in zebrafish
  JOURNAL   BMC Genomics 13, 319 (2012)
   PUBMED   22805612
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 1626)
  AUTHORS   Thakur,P.C., Stuckenholz,C., Rivera,M.R., Davison,J.M., Yao,J.K.,
            Amsterdam,A., Sadler,K.C. and Bahary,N.
  TITLE     Lack of de novo phosphatidylinositol synthesis leads to endoplasmic
            reticulum stress and hepatic steatosis in cdipt-deficient zebrafish
  JOURNAL   Hepatology 54 (2), 452-462 (2011)
   PUBMED   21488074
REFERENCE   10 (bases 1 to 1626)
  AUTHORS   Etheridge,L.A., Wu,T., Liang,J.O., Ekker,S.C. and Halpern,M.E.
  TITLE     Floor plate develops upon depletion of tiggy-winkle and sonic
            hedgehog
  JOURNAL   Genesis 30 (3), 164-169 (2001)
   PUBMED   11477699
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CU570881.11 and CR751224.22.
            
            On or before Feb 10, 2016 this sequence version replaced
            XM_009295936.1, NM_131047.1.
            
            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 :: BC058314.1, GFIL01002919.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA3505370,
                                           SAMEA3505371 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-177               CU570881.11        1707-1883           c
            178-279             CU570881.11        552-653             c
            280-483             CU570881.11        257-460             c
            484-518             CU570881.11        99-133              c
            519-578             CR751224.22        129741-129800       c
            579-788             CR751224.22        129447-129656       c
            789-902             CR751224.22        129253-129366       c
            903-1046            CR751224.22        125943-126086       c
            1047-1139           CR751224.22        125611-125703       c
            1140-1626           CR751224.22        125009-125495       c
FEATURES             Location/Qualifiers
     source          1..1626
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="22"
                     /map="22"
     gene            1..1626
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /note="calreticulin 3a"
                     /db_xref="GeneID:30248"
                     /db_xref="ZFIN:ZDB-GENE-000208-17"
     exon            1..177
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     CDS             87..1343
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /codon_start=1
                     /product="calreticulin 3a precursor"
                     /protein_id="NP_571122.2"
                     /db_xref="GeneID:30248"
                     /db_xref="ZFIN:ZDB-GENE-000208-17"
                     /translation="

MRITAAVCFISALAFIAHADVYFKEQFLDGDGWKSRWVESKHKSDYGQWKLTSGKFYGDAELDKGLQTSQDARFYALSSRFDSFSNEGKTLVIQFTVKHEQKIDCGGGYVKVFPAEMDQTEMHGESQYYIMFGPDICGYSTKKVHVIFNYKGQNHLIKKDIKCKDDELTHLYTLILRPDQTYEVKIDNEKVESGSLEEDWDFLPPKKIKDPEAKKPDDWDDRAKIDDPEDTKPEDWDKPENIPDPDAKKPDDWDEDMDGEWEPAMIPNPEYKGEWKPKQIDNPSYKGTWVHPEIDNPEYAADDAIYKFDSIGVLGLDLWQVKSGTIFDNFLITDDVEEAEKFGTDTWGATKGPEKKMKDQQEEEERKKREEEEKSKKDDNEEDEEDEDEDEPEEDDHTEEPPEEEEEGEDDALPKDEL"

     sig_peptide     87..143
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="COORDINATES: ab initio prediction:SignalP:6.0"
     misc_feature    153..1082
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /note="Calreticulin family; Region: Calreticulin;
                     pfam00262"
                     /db_xref="CDD:459737"
     exon            178..279
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            280..483
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            484..578
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            579..788
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            789..902
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            903..1046
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            1047..1139
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
     exon            1140..1626
                     /gene="calr3a"
                     /gene_synonym="calr; zgc:85636"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gccatattttagtgaccattagctcgagcggcgttcattattatatcaggatcttcgtcaaaagcaggtcctttaaccgtgcagagatgcggatcactgctgcagtgtgctttatttctgcactggccttcattgcgcacgcagacgtctattttaaagagcagtttctggacggagatggctggaaaagcaggtgggtggaatccaagcacaagtccgactacggccaatggaaactgacctcagggaaattctacggtgatgctgagcttgataaaggtctgcaaacaagtcaagatgctcggttttatgctttatccagtcgctttgattcatttagcaatgagggcaaaacattagtgatccagtttacggtgaaacacgagcagaagatcgactgtggcggtgggtatgtgaaagtcttccccgccgagatggaccagaccgaaatgcatggtgaatcgcagtattacatcatgttcgggcctgacatctgtggctacagcaccaaaaaagtccacgtcattttcaactacaaaggccaaaaccacctaatcaagaaagacatcaaatgcaaggacgatgaactcacacacctgtacacactgattctgcgaccagaccaaacttatgaagtgaaaatcgacaatgagaaagtggaatcgggttccttggaggaagactgggatttccttcctcccaaaaagatcaaggatccagaggccaaaaagccagatgattgggacgacagggcgaaaatcgacgatcctgaagacactaaacccgaggattgggacaaacctgagaatatccctgaccctgatgccaagaaaccagacgactgggatgaagacatggatggagaatgggaacctgcaatgatcccaaacccagagtacaagggtgagtggaaacccaaacagattgacaacccctcctacaaaggcacctgggttcatcctgaaatcgacaacccagagtacgcggcagatgacgccatttataagtttgacagcattggtgttctgggactggatctttggcaggtaaaatctggaacaatctttgacaactttttgatcaccgatgatgtcgaggaggctgagaaatttggtacagatacatggggtgcgacaaagggaccagagaagaaaatgaaggaccagcaggaagaggaagaacggaaaaagcgggaagaggaagaaaagagcaaaaaggatgataatgaggaagatgaagaggacgaagatgaggatgagccagaggaggatgatcatacagaagaacctccagaggaagaagaggagggtgaggatgatgcgctccctaaagatgaattgtaaagaagtctcttcctgaatgagcagatctgatgtggttcttaagtctttttctttaaatgaggtgtataatttgaccccgccccctttctagtcacatgtcgcatccctgaattcagatttcttttggttttgctgctagaagccccatgttcatagtacaacctgttaaactagactaataaatgtttgggttttctgttcggtctcgagttgcgcaatgggaaaattctaatgtatcatttgttggatttgcacttttttaaataaatgatttatttttaaa

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