2024-10-23 02:05:55, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS NM_204162 5479 bp mRNA linear VRT 24-SEP-2023 DEFINITION Gallus gallus ALX homeobox 4 (ALX4), transcript variant 1, mRNA. ACCESSION NM_204162 VERSION NM_204162.2 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 5479) 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 5479) AUTHORS Takahashi M, Tamura K, Buscher D, Masuya H, Yonei-Tamura S, Matsumoto K, Naitoh-Matsuo M, Takeuchi J, Ogura K, Shiroishi T, Ogura T and Izpisua Belmonte JC. TITLE The role of Alx-4 in the establishment of anteroposterior polarity during vertebrate limb development JOURNAL Development 125 (22), 4417-4425 (1998) PUBMED 9778501 REMARK Erratum:[Development 1998 Dec;125(23):preceding 4595] COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JAENSK010000214.1. On Dec 6, 2021 this sequence version replaced NM_204162.1. ##Evidence-Data-START## CDS exon combination :: SRR13267655.181035.1, AF092538.1 [ECO:0000331] RNAseq introns :: mixed sample support SAMEA103992393, SAMEA103992470 [ECO:0006172] ##Evidence-Data-END## ##RefSeq-Attributes-START## inferred exon combination :: based on alignments, homology ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-56 JAENSK010000214.1 15395947-15396002 c 57-458 JAENSK010000214.1 15394464-15394865 c 459-769 JAENSK010000214.1 15374961-15375271 c 770-898 JAENSK010000214.1 15371154-15371282 c 899-5479 JAENSK010000214.1 15366237-15370817 c FEATURES Location/Qualifiers source 1..5479 /organism="Gallus gallus" /mol_type="mRNA" /db_xref="taxon:9031" /chromosome="5" /map="5" gene 1..5479 /gene="ALX4" /note="ALX homeobox 4" /db_xref="CGNC:48987" /db_xref="GeneID:373976" exon 1..56 /gene="ALX4" /inference="alignment:Splign:2.1.0" misc_feature 29..31 /gene="ALX4" /note="upstream in-frame stop codon" exon 57..458 /gene="ALX4" /inference="alignment:Splign:2.1.0" CDS 59..1222 /gene="ALX4" /note="isoform 1 is encoded by transcript variant 1; aristaless-like homeobox 4; homeobox protein aristaless-like 4" /codon_start=1 /product="homeobox protein aristaless-like 4 isoform 1" /protein_id="NP_989493.1" /db_xref="CGNC:48987" /db_xref="GeneID:373976" /translation="
MNADTCVSYCDPAAMDSYYNAASQGADGSSPFRAFQASDKFGPAFLAAKGQSFGDSGAKCRSRYSPQECPSLDGSGQAPGPAAPPPAFSKYPQPQQQPPHLYMQRGPCKTPPESNLKLQESGGHNGALQVSCYGKESSLGEADLQPNADPSGMDSSYLSVKEAGVKVPQDRASTDLPSPMDKADSESNKGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRKRERFGQMQQVRTHFSTAYELPLLTRAENYAQIQNPSWIGNNGAASPVPACVVPCEPVPSCMSPHAHPHAAGGVSDFLGVSSTGGHVGQTHVGGLFGTAGIGPSLNGYELNSEPDRKSSSIAALRMKAKEHSAAISWAT"
misc_feature 635..805 /gene="ALX4" /note="Region: Homeodomain; pfam00046" /db_xref="CDD:459649" misc_feature 1145..1201 /gene="ALX4" /note="OAR motif; Region: OAR; pfam03826" /db_xref="CDD:461067" exon 459..769 /gene="ALX4" /inference="alignment:Splign:2.1.0" exon 770..898 /gene="ALX4" /inference="alignment:Splign:2.1.0" exon 899..5479 /gene="ALX4" /inference="alignment:Splign:2.1.0" ORIGIN
gactgaagaactgtggatgcagtttgcgtaatatctttattaccgagaacttcaaggaatgaatgctgatacttgtgtttcttattgtgatccggctgccatggattcctactacaacgcagcctcccagggcgcagacggctcctcgccttttagggcatttcaagcgagtgacaagttcggccccgctttcctggccgccaaaggacagagcttcggtgacagcggcgcgaagtgccggagccgctacagcccgcaggaatgcccgtccctggacggcagcgggcaggcgccgggccccgccgcgcccccgcccgcctttagcaaatacccgcagccccagcagcagccgccgcacctctacatgcagcgcggcccctgcaagacccccccggagagcaacctcaagctgcaggagagcggcggccacaacggagccctgcaggtctcctgttacggtaaggagagcagcttgggagaggctgacttgcagcccaacgccgacccctcgggcatggacagcagctacctcagcgtgaaggaggctggagtgaaagtccctcaggacagggccagcacggacctccccagccccatggacaaggcggactcggagagcaacaagggcaaaaaacggaggaaccgcaccaccttcaccagctaccagctggaggagctggagaaggtcttccagaagacccactacccagatgtctatgccagggagcagctagccatgaggacagacctcaccgaggcccgagtacaggtctggttccagaatcgacgagccaaatggcgcaagcgggagcggtttggccagatgcagcaggtccggacccacttctccactgcctacgagttgcctctgctcactcgtgctgagaactatgcccaaatccagaacccctcttggattggcaacaatggagccgcctcccctgtgcctgcttgtgttgtcccctgcgagccggtgccctcctgcatgtccccccacgcgcatccccacgcggctggtggtgtctccgacttcctcggtgtctctagcactggcggccacgtgggccagactcacgtgggtggcctctttggtacggccggcattggccccagcctcaacggctacgagctgaacagcgagccggaccgcaagagctccagcatcgcggccctgcggatgaaggcgaaggagcacagcgccgcgatctcctgggcgacatgacagggctgccgcccagcgcctcggcacaccacgagagccagtggggaagctgggagaccgtcctgccgggactccagccagcccttgcctcctcggggatgtgaacgcagcactttgagctaccctaggtgtatagaggacgtgtgttaacgtaagtggcgtgtgcccagcatggacgtgggaggtcctggcctcctggcactgggtcagggctgtggggcagcactgctgccacctgctctgggggtgtcctctgctatcgccactgcctcccctgggacttggatgcctttcctccccacgcctttttctgacaccagatctgccttcccggagagtaagagcccccccagcatctccagctcttccctcctcagaacccatctgccttgggcaggggacaggacggggactctggcaccagcaaagagacgctcttcaggttgctcctgcctcgtgggagccatggctgaacggggtgaggggatacccgaggccagaacggtggcagtgctatcccacctccttccacccagcaggaggtgaagcacggagcttaggggcctcttgtgtgggcacagtgcaaccacactgctgtccttgatggttctccagccatccagctcaagatatgcatatgaaatgatggctgcctggccctactgccaccttgcagaaggtcacaaccatatgggcactcggagtttgctctgttacagttgtagctgttgtgctgtagcaaaacatgttccctgtcttttacagggccaggagtcaccaccctcaggtcccccagggaccccaaagaggaacagcttgagtggagcacagagccagggctgtatgagggcatcctcacataacctatcattccctgcttccccaaaaccacctacccacaagaggaaggggagagctagggagtggggatagtagcatggtcccatctctgcatgttccactcctcccctcacctagcacagagaaggaaacaccaaaacttgttttctctcctgaagtcccacccatggttttccccccacatgctcccacttgcacagctgtgttaagtacagtctcctctacaaggccaaacctctctcaagccattcaatggtgtcatggcatcaaggataattgcagagtttccttttgccccaccaaaggtcaccagcagccatagcacacatgctgagttccaccttggtaagcaagagaagtgcagggttttgccccttacagccatcccctcacaccccatccactcaaggtgcagggagatctagcggccctgtaatgggctgcaaacaggctacaaccaaatgtcacgatgcaggtgaactgcataccatataaaaatatttctacagtgcctaaacattgccatacacaacacagatgattacatcaatgctagatcaaatgtaacacatacttattggaatatgggaagacccgtggtgctgtatcttgtctctctgtaaatacaccgagatgcctggctcagtgcacctcgcaacaacatgcagtcaagcagactatgcggatgacctgggcttttccacagaagcaaaccagactcacgttccagcctgaacgttcagctgagttatcagactaaaatgtgcttcaggtgctaaaaatgatgccgattaccgaatagctctggatcactgccctaatctctctcttctgcatgcactggcaataatgttaccgtttaaattgcagtgaataccaccatttaccttaccccagacttcctcgcccaaagctcttttcccacaatgcagagggaaaggcgcttttccaccacggcgctcagcctcccagaactcagcagtgcagcaggttgagagggtgcatgggatggatgcagcaagggcgtgagtactgctggctgtcccactgggtggccatggccatgctggggctttgctgcactctactgaagctgaagggcgttccttcctccactctcacagggccaggatttcacccaggctgcataacggctcacgagatgaagagctgcatcctctcctcctcatgcattggcctctgacaaccctaatcactgccagatgtgcccagtgctgagctgctgggtgcactgcaagtgcagagctctgctcccatgccccactctgctgccattcaccagcatagcccttctgcatctgccgtcctgctgcatcgtcctgccagcaacagcctgggcatgcagcgatgcaggcaggtcttcagctgtgtgcatctgcagttacacacatttttaaaattaatttaatagttaaaaaaacaaaaacaaacaagctagttgttaaattaacaagaaaagctgtataaatatatatatatatatacacacacttagatatatatgcgtgtgtgtgtgtatatatatatatacatatacatatatatatatatacacacataaatatatgtgtgtgtatatatatatatatatatatatacatatcttaacctagccaacctgcagctactgcatttttaagggtcacagggtcagtgctgttcttgcaatttcaagctaccacaaggatgcctttttaaataagaattattattattattttaatacttttcaattctatttatgtctttcttctctatttatttcttctttagtatttcactcctgtccatacatggtgttgcagttccctggctgggatttagatgcctgtgaagctgcaagtttcgcacctccccccccccagccgtgctgtatcctgcatggtgcagcacagcagccccagcaccctgagctcccttgctcccaagatgccctttccagccttgcagagggagcaaaggaggctgtcttgcattacccagggctggaaacacacaagacatcccagattttggggctaggaaaggcaagcagggagagcagcacagttcctaatgggggctgaccggtagccgggtgctgcttgctgccaagtgctcagagcagctgtgcatgcattggcagcatctgcaaaccagcggtgaacatcccacggctcccccggttgctgtcccctcagccctttaactcctccgagcatctcctgctgtgcgtgctggagcacagctggcctgagatacgggcaggggcaccgcagtaaaaacacccgcacggacacccactgtgcatgaagcggcagagctgctgcacacgtgcgtggcaccccctgcagcactcccctggggagcgggatgtgggggccctttggctgcagagggtggggaggccgggtcccatcgcacagagcagagcagcgccttgtcaaacgttctccaaacaaacaaaagccaaaaaggtagtttcctggaaaaggatttaaaaaacaatcaggcagacacagagatctgtgtttattttgctgcactgactgacacaacagaaagcaaacagaccgaattagaaattaaacccaaatgggaacagggggaggaatcgggctgaaagtcatccccagcccttgctgggcccgaggaggcagcccagcgcagcctggcaccccgctagctctttgctggtgccccactcactcccccatcgctaggtaggtaggtagagctaggacttttgtactactgattttttgaaggacagttttcaatgtgtaataatatatcggtttaggtgtgcagtgtttgaaagagagactgggagaaagaaagaaaacaaacctcaatcaatagtattgtttttgttgtaagatattgtaaccttgtataaacgcaaacattttcttttcctttagcttaaaggcctggggtagaacgtattcaaacaaacgaaaaaggttttaaaagttcaggaaattaaaaaaaaaaaaaagaattaaaaaaaaaatcatttaaaacattgccacgtgaggtttgtgccatgcaatgttaatgcctatgcagccatgtattagcagttcattacagtggaacattaaaaaaaaacaaaagaacaaacagacttgcagcttggtcctttccatgtttttttcaaagtaagttattgcacttgcagcttcctttcttttgtttgttcgtttgtttgtttggggggaggggagggctgggatttctgggcactactttttctttttccagttttttaaaggggtgcaattgctgggaaggccccccgctcccgaggccccgtggccacggaggtacaagcactgttgttgttgttttggtttgcaataaactccttctcttctctcctctcaactggaa
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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.
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