2024-05-15 10:54:08, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001163312 1499 bp mRNA linear VRT 29-MAY-2023 DEFINITION Danio rerio ladybird homeobox 1b (lbx1b), mRNA. ACCESSION NM_001163312 XM_001333611 VERSION NM_001163312.1 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 1499) AUTHORS Juarez-Morales JL, Weierud F, England SJ, Demby C, Santos N, Grieb G, Mazan S and Lewis KE. TITLE Evolution of lbx spinal cord expression and function JOURNAL Evol Dev 23 (5), 404-422 (2021) PUBMED 34411410 REFERENCE 2 (bases 1 to 1499) AUTHORS Boswell CW and Ciruna B. TITLE Understanding Idiopathic Scoliosis: A New Zebrafish School of Thought JOURNAL Trends Genet 33 (3), 183-196 (2017) PUBMED 28174019 REMARK Review article REFERENCE 3 (bases 1 to 1499) AUTHORS Guo L, Yamashita H, Kou I, Takimoto A, Meguro-Horike M, Horike S, Sakuma T, Miura S, Adachi T, Yamamoto T, Ikegawa S, Hiraki Y and Shukunami C. TITLE Functional Investigation of a Non-coding Variant Associated with Adolescent Idiopathic Scoliosis in Zebrafish: Elevated Expression of the Ladybird Homeobox Gene Causes Body Axis Deformation JOURNAL PLoS Genet 12 (1), e1005802 (2016) PUBMED 26820155 REMARK Publication Status: Online-Only REFERENCE 4 (bases 1 to 1499) AUTHORS Lukowski CM, Drummond DL and Waskiewicz AJ. TITLE Pbx-dependent regulation of lbx gene expression in developing zebrafish embryos JOURNAL Genome 54 (12), 973-985 (2011) PUBMED 22077099 REFERENCE 5 (bases 1 to 1499) AUTHORS Lyons PJ, Ma LH, Baker R and Fricker LD. TITLE Carboxypeptidase A6 in zebrafish development and implications for VIth cranial nerve pathfinding JOURNAL PLoS One 5 (9), e12967 (2010) PUBMED 20885977 REMARK Publication Status: Online-Only REFERENCE 6 (bases 1 to 1499) AUTHORS Jovelin R, Yan YL, He X, Catchen J, Amores A, Canestro C, Yokoi H and Postlethwait JH. TITLE Evolution of developmental regulation in the vertebrate FgfD subfamily JOURNAL J Exp Zool B Mol Dev Evol 314 (1), 33-56 (2010) PUBMED 19562753 REFERENCE 7 (bases 1 to 1499) AUTHORS Wotton KR, Weierud FK, Juarez-Morales JL, Alvares LE, Dietrich S and Lewis KE. TITLE Conservation of gene linkage in dispersed vertebrate NK homeobox clusters JOURNAL Dev Genes Evol 219 (9-10), 481-496 (2009) PUBMED 20112453 REFERENCE 8 (bases 1 to 1499) AUTHORS Ochi H and Westerfield M. TITLE Lbx2 regulates formation of myofibrils JOURNAL BMC Dev Biol 9, 13 (2009) PUBMED 19216761 REMARK Publication Status: Online-Only REFERENCE 9 (bases 1 to 1499) AUTHORS Wotton KR, Weierud FK, Dietrich S and Lewis KE. TITLE Comparative genomics of Lbx loci reveals conservation of identical Lbx ohnologs in bony vertebrates JOURNAL BMC Evol Biol 8, 171 (2008) PUBMED 18541024 REMARK Publication Status: Online-Only COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CR855357.16 and CT573247.8. On Jul 16, 2009 this sequence version replaced XM_001333611.2. 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## Transcript exon combination :: FP122478.1, BC090687.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA3505370, SAMEA3505371 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-564 CR855357.16 2902-3465 c 565-984 CR855357.16 2001-2420 c 985-1499 CT573247.8 104446-104960 c FEATURES Location/Qualifiers source 1..1499 /organism="Danio rerio" /mol_type="mRNA" /strain="Tuebingen" /db_xref="taxon:7955" /chromosome="1" /map="1" gene 1..1499 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="ladybird homeobox 1b" /db_xref="GeneID:793810" /db_xref="ZFIN:ZDB-GENE-050309-27" exon 1..564 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /inference="alignment:Splign:2.1.0" misc_feature 237..239 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="upstream in-frame stop codon" CDS 252..1049 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="lbx1; ladybird homeobox 1a" /codon_start=1 /product="transcription factor LBX1b" /protein_id="NP_001156784.1" /db_xref="GeneID:793810" /db_xref="ZFIN:ZDB-GENE-050309-27" /translation="
MTTIKVVKICGAMESRGLNPLDHLPPPASSNKPLTPFSITDILSKPTVKRFHRIHRLPASDRVRQSITVSRQTLITQASPLCALQELASKTFKGLELGVLQAAEGKDGLKLFGQRDSPKKRRKSRTAFTNHQLYELEKRFLHQKYLSPADRDQIAHQLGLTNAQVITWFQNRRAKLKRDLEEMKADVESVRSTGLVPLDKLAKLADLERCAAAGATGNPGPQCSPRLGHEYKTVHKLCLSPMSSLSDHTSQDCSEDEEVEIDVDV"
misc_feature order(615..629,633..635,684..686,702..704,741..743, 747..752,759..764,768..776,780..785) /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 621..782 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="Homeobox domain; Region: Homeobox; pfam00046" /db_xref="CDD:425441" misc_feature order(621..623,630..632,750..752,759..764,771..773) /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 565..1499 /gene="lbx1b" /gene_synonym="im:7139117; lbx1a" /inference="alignment:Splign:2.1.0" ORIGIN
agaactgcagagctgtcaaagcacaaggataactgctcatttgctgttgcctgttgggtgctgatggtgagagaagactaactcgttaaatgttgccattgttgttaggcagtttttcggagaactgcaaggacatttttagatttttaaattagaattaggctacaagttggaagcattacaagtttcttccaaaacaaattatagaaccacataatttgtaaccaaagctgctatagacaaaggctggaatgacaaccatcaaagtcgtcaaaatctgtggtgctatggagagccgtgggctaaaccccctggaccaccttccaccacccgcgagctccaacaagcccttaacgccattcagcatcacagacatcctcagcaaaccgactgtcaaacgatttcacaggattcaccgacttccagcatcagacagagtccgacagagcatcaccgtttccaggcagactctcatcactcaagcctcgcctctgtgcgctctgcaggaactggcgagcaaaaccttcaagggtctcgaattaggtgttctccaagcagcagaaggaaaggatgggctaaaattatttggtcaaagggacagtcctaaaaaacgccgaaaatccagaacggccttcacaaaccatcagttatatgaactagagaaaaggtttctccatcaaaaatacttgtcacctgccgacagagaccaaattgcccatcagctgggacttacaaacgcgcaggtcataacctggttccagaatcgacgggcgaaattaaaacgagacctcgaggagatgaaagcggacgtggagtccgttagatccacaggtttagtccctctggataaactcgctaaactggctgatctggagaggtgtgcggccgctggagccacggggaacccggggccccagtgctcaccacggctgggtcacgagtacaagactgtgcacaaattatgtctgtcccccatgtcgtctctctcagaccacacaagtcaagactgctccgaagacgaagaagtggaaatagacgtcgatgtctgatttaaaaccactgtgtagcctgaaattgtgacgcatatcttcagacgttgtaataataatatgaacgcatgcacataaccgtctttagagaagctgatttagtttaatttatagtcagactatgcaagtctatctcctttatagttcgacattgactgaactagcagctgtatattttatatttataatatattgtacataatgtggctttaatgatgtaaagaatattgaacatgaaccagggcatcaaacagagcaatacaaccttttattgaagataactatttttacaggtgtatttattacatatacgtttcatttatgcagttttttttatataaagttgttgttctgtttacttggagtgccttttaacattgtggcattgtaccagttacagtgtgtcatttaatgtaaattgaatttgaaaataaaacatttataccgttt
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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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