LOCUS       NM_001257388            2293 bp    mRNA    linear   VRT 23-SEP-2023
DEFINITION  Gallus gallus LIM homeobox transcription factor 1, alpha (LMX1A),
            mRNA.
ACCESSION   NM_001257388 XM_003641657
VERSION     NM_001257388.4
KEYWORDS    RefSeq.
SOURCE      Gallus gallus (chicken)
  ORGANISM  Gallus gallus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
            Phasianidae; Phasianinae; Gallus.
REFERENCE   1  (bases 1 to 2293)
  AUTHORS   Tang H, Finn RD and Thomas PD.
  TITLE     TreeGrafter: phylogenetic tree-based annotation of proteins with
            Gene Ontology terms and other annotations
  JOURNAL   Bioinformatics 35 (3), 518-520 (2019)
   PUBMED   30032202
REFERENCE   2  (bases 1 to 2293)
  AUTHORS   Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C,
            Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S.
  TITLE     Manual GO annotation of predictive protein signatures: the InterPro
            approach to GO curation
  JOURNAL   Database (Oxford) 2012, bar068 (2012)
   PUBMED   22301074
  REMARK    Publication Status: Online-Only
COMMENT     INFERRED REFSEQ: This record is predicted by genome sequence
            analysis and is not yet supported by experimental evidence. The
            reference sequence was derived from JAENSK010000237.1.
            
            On Sep 23, 2021 this sequence version replaced NM_001257388.3.
            
            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.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns
                              SAMEA103992393, SAMEA103992482 [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-168               JAENSK010000237.1  5160015-5160182
            169-355             JAENSK010000237.1  5160683-5160869
            356-588             JAENSK010000237.1  5178834-5179066
            589-758             JAENSK010000237.1  5181343-5181512
            759-836             JAENSK010000237.1  5181618-5181695
            837-906             JAENSK010000237.1  5181774-5181843
            907-1074            JAENSK010000237.1  5181956-5182123
            1075-2293           JAENSK010000237.1  5182637-5183855
FEATURES             Location/Qualifiers
     source          1..2293
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="8"
                     /map="8"
     gene            1..2293
                     /gene="LMX1A"
                     /note="LIM homeobox transcription factor 1, alpha"
                     /db_xref="CGNC:58630"
                     /db_xref="GeneID:777133"
     exon            1..168
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     CDS             93..1235
                     /gene="LMX1A"
                     /codon_start=1
                     /product="LIM homeobox transcription factor 1-alpha"
                     /protein_id="NP_001244317.2"
                     /db_xref="CGNC:58630"
                     /db_xref="GeneID:777133"
                     /translation="

MLDGLKMEETLQSALDPAAPFSSLLGKAATPRSVCEGCQRVIADRFLLRLNDSLWHERCVQCTSCKEPLHTTCFYRDKKLYCKLDYEKLFAVKCAGCLESIAPSELVMRAQQSVYHLHCFCCCVCERRLQKGDEFVLKEGQLLCKGDYEKERELLSLVSPALSDSGKSDDEDSVCKMGPASAKGAEEGKDHKRPKRPRTILTTQQRRAFKASFEVSSKPCRKVRETLAAETGLSVRVVQVWFQNQRAKMKKLARRQQQQQQDQQNTQRLSSAQPNSSGPGGLEGLMNPYTALQPPQQLLGMEQVYSSDPFRQGLTPPQMPGDHMHPYGAEPLFHDMDSDDTSLSNLGDCFLATADAGPLQTRAGNPIDHLYSMQSSYFTS"

     misc_feature    195..350
                     /gene="LMX1A"
                     /note="The first LIM domain of Lmx1a; Region: LIM1_Lmx1a;
                     cd09370"
                     /db_xref="CDD:188756"
     misc_feature    order(195..197,204..206,258..260,267..269,276..278,
                     285..287,336..338,345..347)
                     /gene="LMX1A"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188756"
     misc_feature    372..536
                     /gene="LMX1A"
                     /note="The second LIM domain of Lmx1a and Lmx1b; Region:
                     LIM2_Lmx1a_Lmx1b; cd09378"
                     /db_xref="CDD:188764"
     misc_feature    order(372..374,381..383,438..440,447..449,456..458,
                     465..467,522..524,531..533)
                     /gene="LMX1A"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188764"
     misc_feature    675..845
                     /gene="LMX1A"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            169..355
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            356..588
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            589..758
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            759..836
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            837..906
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            907..1074
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
     exon            1075..2293
                     /gene="LMX1A"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cgtgccctggggctgccggagctgagcgccgcgtgtccgggctgtgtcggcaggcgggcggtgcggcccctcgcccggcccggctcctcaccatgctggacggcttgaagatggaggagactttgcagagcgccctggaccccgccgcccccttctcctcgctgctgggcaaagccgcgacgccccgctccgtgtgcgaggggtgccagcgggtcatcgccgaccgcttcctcctgcgcctcaacgacagcctgtggcacgagcgctgcgtgcagtgcacgtcgtgcaaggagcccctgcacaccacctgcttctaccgagacaagaagctctactgcaagctggactacgagaagttgttcgcagtgaagtgcgccgggtgcctggagagcatcgcgcccagcgagctggtgatgcgcgcccagcagagcgtctaccacctgcactgcttctgctgctgcgtctgcgagcggcgcctgcagaagggcgacgagttcgtgctgaaggaagggcagctgctctgtaagggcgactacgagaaggagcgtgagctgctgagcttggtgagcccggctctgtcggattccggtaaaagtgacgatgaagacagtgtctgcaaaatgggcccagcctcagcaaagggagctgaggaggggaaggaccacaagcggcccaagcgcccgcgcaccatcctgaccacgcaacagcgcagggccttcaaggcgtccttcgaggtctcctccaagccctgcaggaaggtgcgggagacactggcagccgagacagggctgagcgtgcgcgtggtgcaggtctggttccagaaccagagagcaaagatgaagaagctggccaggaggcagcagcagcagcagcaggaccagcagaacacgcagcgcttgagctcagcccagccgaacagcagtggccctggggggctggaggggcttatgaacccctacactgctctgcaacccccacagcagctcctgggcatggagcaggtctacagctccgaccccttccggcaagggctcacccccccacagatgcctggagaccacatgcacccctatggtgctgagcccctcttccatgacatggacagcgacgatacctcactgagcaacctgggtgactgcttcctcgccacagcagatgcggggccactgcagacacgggcggggaaccccatcgaccacctgtactccatgcagagctcctacttcacctcctgagcatggcagggccctgcaacgggacgttgtcccgcaacattttgtagctcgggatgcccagggacccaatgagttttgggttgcatagtttcatgtttctcttaggatcctagggttaggggcaggttgggcagctggcgggttggattcaggttgccgtgcagatgtagaagcctggagacgtctccccaggatgtggggctgggtgtacgtgtgtggcacatgtgtgtgcggagccgtgcggctgtgtgcggggatgtcccgccagattgtatccacaaagtttatttctaagtctatcagaaatttactgtacagcgaaagtaactttattttcagcgtgaaccatatttaaggaaatactcaatgcacttaagttataagatgaaatgatttactttttataaacgttatgtttaggttgcaaaagcccagcggcagggaaggaacacctgcttgtttcaggaggtaggtctgggttttggggtcggttcttttcggtgctctcaggttaccccacttgttttgaggtggactccgcagcaggctcctcaccagaagggcggtggggacggcaaggtgacagcatcctgtcctcaccactcagcgtggctggtgcttgatgctggagatggagaaatccccgcctctatcctccagcacagacccatcccatacccagaggtgggtgatggggtggtgtggagtgatgtcccggctctgggaggcaccagcccatgccgccaggaggaaggagccctgcatctcccaccctacgcacgggtccatctctgcaagttctccgggtcgagctttcagccgaccatcgcctcatccccgtctcgttttcatgcgttgtgtccttttgtgctgctgttcccaaacgatgtaaagacatgcaatgaatggctgcaaggctcagaacactggttcattggcacagcttgatttgacactgaatgtagcagggtctggaggtggctgacccggcaggagatgctgacactctgtcgggtatcacgtaacaaggtgaaattaaaagacaacaaaatcccccc

//