GGRNA ver.2 Home | Help | Advanced search    Previous release (v1)

2025-02-23 06:08:10, GGRNA.v2 : RefSeq release 228 (Jan, 2025)

LOCUS       NM_001005771            2320 bp    mRNA    linear   VRT 07-DEC-2024
DEFINITION  Danio rerio homeobox C8a (hoxc8a), mRNA.
ACCESSION   NM_001005771
VERSION     NM_001005771.1
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 2320)
  AUTHORS   Sundaramoorthi,H., Fallatah,W., Mary,J. and Jagadeeswaran,P.
  TITLE     Discovery of seven hox genes in zebrafish thrombopoiesis
  JOURNAL   Blood Cells Mol Dis 104, 102796 (2024)
   PUBMED   37717409
REFERENCE   2  (bases 1 to 2320)
  AUTHORS   Xue,S., Ly,T.T.N., Vijayakar,R.S., Chen,J., Ng,J., Mathuru,A.S.,
            Magdinier,F. and Reversade,B.
  TITLE     HOX epimutations driven by maternal SMCHD1/LRIF1 haploinsufficiency
            trigger homeotic transformations in genetically wildtype offspring
  JOURNAL   Nat Commun 13 (1), 3583 (2022)
   PUBMED   35739109
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2320)
  AUTHORS   Yamada,K., Maeno,A., Araki,S., Kikuchi,M., Suzuki,M., Ishizaka,M.,
            Satoh,K., Akama,K., Kawabe,Y., Suzuki,K., Kobayashi,D., Hamano,N.
            and Kawamura,A.
  TITLE     An atlas of seven zebrafish hox cluster mutants provides insights
            into sub/neofunctionalization of vertebrate Hox clusters
  JOURNAL   Development 148 (11) (2021)
   PUBMED   34096572
REFERENCE   4  (bases 1 to 2320)
  AUTHORS   Lu,J.K., Tsai,T.C., Lee,H., Hsia,K., Lin,C.H. and Lu,J.H.
  TITLE     Pectoral Fin Anomalies in tbx5a Knockdown Zebrafish Embryos Related
            to the Cascade Effect of N-Cadherin and Extracellular Matrix
            Formation
  JOURNAL   J Dev Biol 7 (3), 15 (2019)
   PUBMED   31336923
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2320)
  AUTHORS   Wang,J., Fei,F., Berberoglu,M.A., Sun,S., Wang,L., Dong,Z. and
            Wang,X.
  TITLE     Csy4-based vector system enables conditional chimeric gene editing
            in zebrafish without interrupting embryogenesis
  JOURNAL   J Mol Cell Biol 10 (6), 586-588 (2018)
   PUBMED   30063795
REFERENCE   6  (bases 1 to 2320)
  AUTHORS   Thisse,B., Wright,C.V. and Thisse,C.
  TITLE     Activin- and Nodal-related factors control antero-posterior
            patterning of the zebrafish embryo
  JOURNAL   Nature 403 (6768), 425-428 (2000)
   PUBMED   10667793
REFERENCE   7  (bases 1 to 2320)
  AUTHORS   Amores,A., Force,A., Yan,Y.L., Joly,L., Amemiya,C., Fritz,A.,
            Ho,R.K., Langeland,J., Prince,V., Wang,Y.L., Westerfield,M.,
            Ekker,M. and Postlethwait,J.H.
  TITLE     Zebrafish hox clusters and vertebrate genome evolution
  JOURNAL   Science 282 (5394), 1711-1714 (1998)
   PUBMED   9831563
REFERENCE   8  (bases 1 to 2320)
  AUTHORS   Prince,V.E., Price,A.L. and Ho,R.K.
  TITLE     Hox gene expression reveals regionalization along the
            anteroposterior axis of the zebrafish notochord
  JOURNAL   Dev Genes Evol 208 (9), 517-522 (1998)
   PUBMED   9799433
REFERENCE   9  (bases 1 to 2320)
  AUTHORS   Prince,V.E., Joly,L., Ekker,M. and Ho,R.K.
  TITLE     Zebrafish hox genes: genomic organization and modified colinear
            expression patterns in the trunk
  JOURNAL   Development 125 (3), 407-420 (1998)
   PUBMED   9425136
REFERENCE   10 (bases 1 to 2320)
  AUTHORS   Misof,B.Y., Blanco,M.J. and Wagner,G.P.
  TITLE     PCR-survey of Hox-genes of the zebrafish: new sequence information
            and evolutionary implications
  JOURNAL   J Exp Zool 274 (3), 193-206 (1996)
   PUBMED   8882497
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC080255.1.
            
            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 :: BC080255.1, EE693846.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2320
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="23"
                     /map="23"
     gene            1..2320
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="homeobox C8a"
                     /db_xref="GeneID:449648"
                     /db_xref="ZFIN:ZDB-GENE-990415-114"
     exon            1..689
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    245..247
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="upstream in-frame stop codon"
     CDS             254..1006
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="homeobox gene C-8; homeo box C8a"
                     /codon_start=1
                     /product="homeobox protein Hox-C8a"
                     /protein_id="NP_001005771.1"
                     /db_xref="GeneID:449648"
                     /db_xref="ZFIN:ZDB-GENE-990415-114"
                     /translation="
MSSYFVNPLFSKYKGGETLEPTYYDCRFPQSVARSHTLVYGHGAAAPGFQHPSHHVQDFFHHGTTGISNPGYQQNPCALACHGDATKFYGYEALPRQPLYGTQQEATLAQYPDCKSSNSTNPGEGQGHLSQNSSPSLMFPWMRPHAPGRRNGRQTYSRYQTLELEKEFLFNPYLTRKRRIEVSHALSLTERQVKIWFQNRRMKWKKENNKDKFPGQRGEAEAEAEEEGNEDGEAEEGEDKETEEKEESKE"
     misc_feature    587..709
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="propagated from UniProtKB/Swiss-Prot (Q68EH7.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    665..682
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="propagated from UniProtKB/Swiss-Prot (Q68EH7.1);
                     Region: Antp-type hexapeptide. /evidence=ECO:0000255"
     misc_feature    701..871
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    869..1003
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /note="propagated from UniProtKB/Swiss-Prot (Q68EH7.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            690..2294
                     /gene="hoxc8a"
                     /gene_synonym="cb341; hoxc8; z-179; zgc:91832"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
gtgcacgccatgatttgaggctgcaaaaggaaaggctggcgataggaagagagagagagagagactaagcgaaaggagctgaagtgggagctgcctcagattgtccgaaggggcagcatttctccatctagttccggttgctgtgtctgcgttgcatgccatttggaactgcaacaataggttgccaccattaggagaggagaatacatatattttttccaaacagactgactctttttaatgctagataaacatgagctcttattttgttaaccctcttttttccaagtacaaaggcggcgaaacattagagccaacttactacgactgcaggtttccacagagcgttgcccgaagccacacgcttgtgtacggacatggagcagctgcgccggggtttcaacacccgtcgcatcacgtacaggactttttccatcacggaaccacaggtatctccaaccctgggtatcaacagaacccctgtgcattggcatgtcacggagacgctacgaaattttatggatatgaagcccttccgaggcaaccgctttatggtacccagcaagaggccaccttagcgcaatacccagactgtaaatcgtccaatagcactaaccctggagaaggacaaggccacttaagtcaaaactcctctccgagcctcatgttcccttggatgcggcctcacgctcctgggagacgcaatggaaggcagacatacagccgataccagacattggagctggagaaagagttcctcttcaacccatacctcacacgcaagcgccgtattgaagtgtcccacgcgctaagcttaactgaacgacaggtgaagatctggtttcagaatcgccgaatgaagtggaaaaaagaaaataacaaagacaaatttccggggcagagaggagaggctgaagcagaggccgaagaagagggcaatgaagacggtgaagcggaggaaggagaagacaaggaaacggaagagaaagaggaaagcaaggagtgattttatggtcttttttatggttatatggcagatattgaagaggtctcacgaatgggaaatgaaagagaagacgcgccaattttattacaaacagttgggtcaaaaagtgagaaaatccccctccatacaaatgtacattgaaacctgcccaaagaaaaaaggcttcttttttaccaacacacgaagacttttaccattagcgaaatgtggatctgtgcattcgacaaattactcaaaagacagacctacaggaatacaataacccatcgttttatataggaaatgttagcagcatgaaaaacatattacggaatttgacattcatttcatacttgatgaatatgtctgggggttaaatggataagatgcaaccaactgaaataattgcatcagcttatcacctttaaaactattggtcttgtacataaaatcaagccacatcatgctgttacaacatacattacgaatcaaattgacagaaaaatatattatgtatttggtgtaacgttatttctacaatccgaatatggcaaaggtgtattagtgccatatacagagcaaagcgatggcaagtgtagaaaattcattctgtattacacacattatagattacttaactgttctttgttgttcttctatgtgagtgggcgaggatacagtttgtattttttcgatattttattggactcacaagagattgcaatcgtttgaaaatctcgtttgaagctacctaatcatgggaaatttgcaatatacatttctacctagagatttcatagactcttgtttttgtagtgtattaaacctaagttatgtaatttaccctttaaacacttatgattatcgagcattttgtcgtcttcggaagacacgaatagctcgaagccaatcttaactattttaaaagattgtatcacggcactacctaaaacaaagttttgctagaaagaatgaatttatttattctacgtgctgctttgttaaaaataattatacattttcccccaacaacttaaactgcctatagaaaatgcacatttatgtgtagttgaacaaacacgctgattactaccctaccttacttaaagaaagagagtcaatttatcgtgctggtgttatagcgtagattttgaattgcactgagtataatcttcatgtacgtcttgttatatcttgctgttatcaatatgctcgttttacttgtgttcctcgtgtgaatataaacaaattcgtgtgtccacgccattgttgttgaaatcaacaagaataaacaagatggctcattctaaaaaaaaaaaaaaaaaaaaaaaaaaa
//

by @meso_cacase at DBCLS
This page is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]