2024-05-05 17:56:36, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_005168976 2531 bp mRNA linear VRT 15-JUN-2017 DEFINITION PREDICTED: Danio rerio iroquois homeobox 6a (irx6a), transcript variant X1, mRNA. ACCESSION XM_005168976 VERSION XM_005168976.4 DBLINK BioProject: PRJNA13922 KEYWORDS RefSeq. SOURCE Danio rerio (zebrafish) ORGANISM Danio rerio Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_007118.7) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process On Jun 15, 2017 this sequence version replaced XM_005168976.3. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Danio rerio Annotation Release 106 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 7.4 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..2531 /organism="Danio rerio" /mol_type="mRNA" /strain="Tuebingen" /db_xref="taxon:7955" /chromosome="7" gene 1..2531 /gene="irx6a" /gene_synonym="zgc:109993; ziro6a" /note="iroquois homeobox 6a; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 4 ESTs, 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 58 samples with support for all annotated introns" /db_xref="GeneID:474317" /db_xref="ZFIN:ZDB-GENE-040712-5" CDS 527..2044 /gene="irx6a" /gene_synonym="zgc:109993; ziro6a" /codon_start=1 /product="iroquois-class homeodomain protein IRX-6 isoform X1" /protein_id="XP_005169033.1" /db_xref="GeneID:474317" /db_xref="ZFIN:ZDB-GENE-040712-5" /translation="
MVTKEAAMSFSQFGYPYNATSQFFVSATPSTTCCDSISRSVTEGSSASQTAASFCCPSYENRLLASTRTELNAALGMYGSPYAAAAAAAGQNYANYFPYSADPSAIYSSLNPQYEIKEGSGSLHSTITQPATYYPYDHSLGQYQYDRYGTVDFNGSTRRKNATRETTSTLKTWLYEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWSPKNKAGDDRKEDLGKSDPDITKDSKDSKDEQDLQFSDLDDMEDEDCDKLDSDCEKSGQDDLPTSSPPKRDCNPDIPLHSNFPSFPCGLKSLGPLNPDYLDHLGSKPQQQQPSPQSTSINTVALSHFESSEKPRIWSLARTAAAGVVLGTQHVGDVRTGPVDCQMQGVRLPTVGAVQCGELKGLQDPTNLSNTESLFQEGLQGIHKAYSSGSFKTLQLHSSSYPGLTESCQYSSMEGFPSAGKTETESSELSDTCPTIQEAKTTAFRPVMKRTMEMPINMGKFL"
misc_feature order(998..1006,1010..1012,1070..1072,1088..1090, 1127..1129,1133..1138,1145..1150,1154..1162,1166..1171) /gene="irx6a" /gene_synonym="zgc:109993; ziro6a" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(998..1000,1007..1009,1136..1138,1145..1150, 1157..1159) /gene="irx6a" /gene_synonym="zgc:109993; ziro6a" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 1046..1162 /gene="irx6a" /gene_synonym="zgc:109993; ziro6a" /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920" /db_xref="CDD:428673" ORIGIN
agtggctgtttgaaatacttttaagggctctaagtctaataatacactaatgttagaaaagaacagaaagggggaaaacaggggacaggggtgtgcaaaacacacctcaagaaaagcgcgaagcatgacgtgattggcaaacacatcattctatcctcgccgtcccgggattagaatgacgtcacactgatacccgtgcatggatgaattctaaagaactatagaggcacaaataatagcacaaccacaagttcatatcttgcaagtcttacgttatcctttaagctttctacagctgtttaacaacaatatttttgtacttgatgaagcttaactctaatttctcatttccttaaggggattatctatacatataaaactagggctggcgtaaacatcctcagtgcttcccagttaagtgcagtcatctattattgagcgaaaggccgagtgtggaaatgtgtgtaagacggtggatttgaagtagatttggtttcaatcgatcagcaggagaagaatattgcttatggtaacaaaagaagcagctatgtccttctctcagtttggatatccttacaatgcaacttctcagtttttcgtgtcggcaacccccagtacgacttgctgcgattcgatatccaggtcggtgacagaaggatcgagcgcatcgcagaccgcagcctccttctgctgtccctcctatgagaaccggctgctggcgagtacacggacggagctcaacgccgcgctcgggatgtacggctccccttacgcagcagcagcggccgcagccgggcagaactacgccaactactttccgtatagcgccgacccctccgccatctactccagcctgaacccacaatatgaaatcaaagaggggtcaggcagtcttcatagcactataacacaaccagccacttactatccatatgaccactcactcggacagtaccagtatgacaggtatgggacagttgattttaatggatcaacacggagaaagaacgccacacgtgagacaacaagtacgcttaaaacatggctttatgagcaccgcaaaaacccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcggtaagagtgacccagacattaccaaagactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactgggcctgtggactgtcagatgcagggagtccggttacccacagtcggagcagtgcagtgtggggagctgaagggccttcaggaccctacaaacctcagcaatactgaaagcctttttcaagaaggactacaggggatacacaaggcatacagtagcgggagcttcaagacactacaacttcactcttcatcatatcctggactgacagaatcctgccagtactcctcaatggaaggcttccccagtgcaggaaagacagagacagaatccagtgagctcagtgacacatgcccaacaatccaggaggctaagaccactgcattcagacctgtgatgaagaggactatggaaatgccaataaacatggggaagtttttatgatctacattatgcactatggaatggagtcaatgaggaactttaagcccatggcagcagacacttgaaatagtagcgcaatgactttgtgtgccctttctggaactgtgaaaactggaggcagccataattttgcacaatatgatttaatggtgtcaataactttatgcaatgttttgtgtatgtatgagaataaattgtgattttttatgtctgcattggcaatcgtaggtttagtaattctatttatctatttattgttttatcatccatctgctttatttatctgttaccatgtgtcctctcaaggtttttttgtgtgtgttaagtttaattctctgtggttatgtgcttaatgttatgtgatttacttttttttggaagctggtgtaaaatttagtcagtcttttaacttttatttacttctcaaaaataaatgaggtgcgatactgtgctcctgcggagtgtgatatgtttatataaaaaaaaa
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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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