2024-04-29 10:25:54, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_054324552 11423 bp mRNA linear PRI 05-OCT-2023 DEFINITION PREDICTED: Homo sapiens PBX/knotted 1 homeobox 1 (PKNOX1), transcript variant X7, mRNA. ACCESSION XM_054324552 VERSION XM_054324552.1 DBLINK BioProject: PRJNA807723 KEYWORDS RefSeq. SOURCE Homo sapiens (human) ORGANISM Homo sapiens Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_060945) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Status :: Updated annotation Annotation Name :: GCF_009914755.1-RS_2023_10 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 10.2 Annotation Method :: Best-placed RefSeq; Gnomon; RefSeqFE; cmsearch; tRNAscan-SE Features Annotated :: Gene; mRNA; CDS; ncRNA Annotation Date :: 10/02/2023 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..11423 /organism="Homo sapiens" /mol_type="mRNA" /isolate="CHM13" /db_xref="taxon:9606" /chromosome="21" /sex="female" /cell_line="CHM13htert" /tissue_type="hydatidiform mole" /note="haploid cell line" gene 1..11423 /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /note="PBX/knotted 1 homeobox 1; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 30 ESTs, 646 long SRA reads, 10 Proteins, and 84% coverage of the annotated genomic feature by RNAseq alignments" /db_xref="GeneID:5316" /db_xref="HGNC:HGNC:9022" /db_xref="MIM:602100" CDS 6271..7581 /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /codon_start=1 /product="homeobox protein PKNOX1 isoform X1" /protein_id="XP_054180527.1" /db_xref="GeneID:5316" /db_xref="HGNC:HGNC:9022" /db_xref="MIM:602100" /translation="
MMATQTLSIDSYQDGQQMQVVTELKTEQDPNCSEPDAEGVSPPPVESQTPMDVDKQAIYRHPLFPLLALLFEKCEQSTQGSEGTTSASFDVDIENFVRKQEKEGKPFFCEDPETDNLMVKAIQVLRIHLLELEKVNELCKDFCSRYIACLKTKMNSETLLSGEPGSPYSPVQSQQIQSAITGTISPQGIVVPASALQQGNVAMATVAGGTVYQPVTVVTPQGQVVTQTLSPGTIRIQNSQLQLQLNQDLSILHQDDGSSKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQPMLDSSCSETPKTKKKTAQNRPVQRFWPDSIASGVAQPPPSELTMSEGAVVTITTPVNMNVDSLQSLSSDGATLAVQQVMMAGQSEDESVDSTEEDAGALAPAHISGLVLENSDSLQ"
misc_feature 6508..6765 /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /note="N-terminal of Homeobox Meis and PKNOX1; Region: Meis_PKNOX_N; pfam16493" /db_xref="CDD:435375" misc_feature order(7048..7062,7066..7068,7126..7128,7144..7146, 7183..7185,7189..7194,7201..7206,7210..7218) /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(7054..7056,7063..7065,7192..7194,7201..7206, 7213..7215) /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature 7102..7218 /gene="PKNOX1" /gene_synonym="pkonx1c; PREP1" /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920" /db_xref="CDD:428673" ORIGIN
gtgtcgcgtggcccagcgtcggcgtgacggttggacgcgggcgcggcactgcgggtcccgattgctgcagccgcttgtcagtgtgatgaagattggcacccagctactttttgagatgggatcttgctctatcagccaagctggatcatgccactgcactcagcttccaaacctttgctcttgctggagatgcactactacaaataagccacaggacatcactttcttcagaccctgcagagcatgttacactcatgtggcttcggaagctgcattctggtcacagctgagcgtctttcgtggtgcttgcctcatgggccagctgcttcatcagctcaccctgtgtttcccattttgaataatgccgtaattcataggttgaattgatgtaattcactgttgcaggcaccagagttgtacagattgttgacaagtgtcctgtccttgtgagttcgaccttatcttagaagcacaattattttatcgtcagaggtcaggctgtgtagaagaaatagcagggctttggagctggacagattgaagtcacccaacctctggtacatctgtgtcctcaacagggaaacaaggacaactaacctatctgcgtcttctagagtagtctggtcacagctagtgtgaaccccccggtcacactgttagtggcaaaaaaccattttattatgtggacaaattctgtggaccaggaatatggagaggaagtggccgtctctcctccaggatgtctgagtcctcagctgggacgactcagcggctgggggtgacgtaatgactgaggaatggtatcttctggaggcgctttctgaaatctgtcagctggaacacgagctggggatactgaccagagcacacgtgcagactccacaggacctgggcttcttcacagattagaggagggcctacatcaacaggactcgcgggccgagcttccaggcgccttgagtggctgggccgggcctccacgttgccctgctgcagggttaggtgggagcgagactggccccactcctgttgactgttccaccagcaccttcagtttgtggaagtggttgtgtccaaagagattttcgtaaaaacatcacaattctaaaacttttttttttttttcacaattctaaaactttatgcatttttggcatttaaaaagccctggcaagtctactgccttatttctcctgctcccttggcctgtgggtctgttcctgtatggttacccactttgttttttttttttttttgctgttactgtggctttgtagtatattttaaaatttggtattcgttaactctttttttttttttttgaaacagagtctcgttctgttgcctggcctggagtgcagtggtgcagtctgggctcacagcagcctccgcttcccaggtgcaagtgattctcctggctcagcctccggagtagctgggattacaggcacacgccaccatgcccggctaatttttgtatttttagtagacacggggtttcaccatgttggccaggctggtctcagactcctgacctcaggtgatccaccggctcagcctctcaaagtgttgggattacaggtgtgagccgccgcgcccagcctttttttttttttttttttttaaggcaaggcggggtctccctttgtcgcccaggctggagtacagtggtatgatcacggctcactgcagcctcgacctcccggactcaagtgatccccctgcctcagcctctcaagcagctgggactacagacatgtgccaccatgcccagctaaatttttggatttttagtagagataaggtctcactttgttgcccaggctggtcttgaactcctgagctcaaacgatccttccacctcagcctcccaaagtgctgggattacaggcaggagccactgcacctggcctcttagctcttttaagggtaacctagctactcacagaccctttatttctccatttacatttgagagcagttttattttatgtattttattttatttactttggaggaagtttgattgagattatatctgcatgatttattatttatttatttatttatttatttatttatttatttatttgagacagagtcttgctctgtcgcccagactggagggcagtggcatgatcttggctcactgcaacctccacctcctggattcacgcaattctcctgcctcagcctcccgagtagctgggattacaggcatgcgcctccacgcccagctaattttttttgtatttttaagtggaaacgggatttcaccatgttggccagtctggtttcgaactccagaccacaagtgatccgcccgcctcagcctcccaaagtgttaggattacaggtgtgagccactgcgccggaccatatctgcatgatttatagataataacatttactgagaaaaccagtggaatctccgtaaactgttagaaccacaggaggatccagaacagttgccagatacaaggtcagtctacacaaaccagtgatacttctaccggcaacccaccagaaagtgtgactgctcttgagatggtaaccagaaaacccataaagtgtttaggaattaatctaagaagacctccagaaagaagaccatcagacttaatcctggatgaaggcgtgggtctgatgaatgaagaagatcccgtgctcatggaggggatgatctgttgttataatgatgtctcttttccccacatgagtccataaatacatttaaaaagtgttataaatttgatcaagcacggtggcttatgcctgtaatcccagcactttaggaagctgaggcaggaggagcgcttgagcccaggagtttgaggacagcctgggccgcatagtgagacaccgtctctgtaaaaaatacaaaaattagctgggcttggtgacacatgcccgtagtcctagctactaaggagactgaggtgggaggattgcttgagcctgggaagttgtggctacagtgagccatgaatgtgccactgcattccagcatgggtgacagagtgagaccctgtctcagaataaaataaattgtttcttgacagcagagacattgttttgtttgctgctctatcctcagcacttagaacagccaggcataaagaagacattcagtaagtatgtgtggaatgagtgaagggttcggtgaagtgtgtagagttgtatgccctaccttctcaccggacagtgacctcaaactctttcccactctgcctcgtgtgttgtgatcgcacaacggatgagtgcagttgacttccctgttccctgtcgatggatggataggtttgtttccaatttttgttattgtgaataaaaaaaacctttagcatctaggttttcttgctaaaagtttttaatgccctttaaaatgaggctttgacacagaaaagattatttaagtttatttttaaatgaacatttattaatgtagagagttacaggcttggttttcctctattttatatagaagttgctaattttattctctttataaagtttagaaaattttttttgaggcagagtcttgctctgtcacccacgctggcgtgcagtggcctgatctcagctcaccgcaacttccgcctctctggctcaagccttcctccctcctcagccccccaagtagctgggactataggcacaacaccacacccggctaatttttgtattttaatagcaatggggtcttaccatgttggcaaggctggtctcaaactcctggccccaagtgatctgcctgcctcagcctcccaaagtgctgggattacgtgtgtgagccaccatgcccagccaaatttagtaagttttaactttcacctttaagacagcctttgaacaacttaaattatcagaccatatatatatatatatatatatatattttttttttttttttttttttttgagacggagtcttgctctgtcacccaggctggagtgcagtgacacaatctcagctcactgcagcctctgcctcccgggttgaagcagttctcctgcctcggcctcccaaagtgctgggattacaggcgtgagccattgcacccagccaatttttgtatttttagtagaggcggggtttcaccatgttggccagactggtcttgaactcctggcctcaagtgatccacccacattggcttcccaaaatgctagtattacaggcacgtgccactgtacctgactgttttaaccagttttgttagagagaaggactaccaatctatacattttgaaattctgacttttccctcatattatgaacattttgaaagacaatctgagagtagaatcttgattatctgctacctagattcaacagttattgttatctggacccaatttatttatgtttatatttttattgatccatttgaaagtaagttttggatatcatggtcatacaactaaacattgagcacgtacttctcaaaatggtgatatttatgctgtgagcttatagctttatcacaccatcaaaataacactcaatctctaatagtatataatactatatattcacatctcctcaaatttccttaagttgtcttttacagtgtttgtttttgaaaccaagatcacataccacatttggttgttgtttcttttcttttctttttctttcttcttttttttttttttttttttttaagacggagtcttgctctgtcgcccaggctggagtgcagtggcacaatcttgacttactgcagcctccgcctcctgggttcaagcgatttttctgcttcagcctccccagtagctgggattacaggtgcctgccaccatatccagctgatttttgtatttttagtagagacggggttttaccatcttggccaggctggtctcgaactcctgacctcaggtaatccacctgcctaagcctcccaaagtgctgggattacaggtgtgaaccaccacacctggccgtttacttttatttttgccagtttctttatagagtgcctctcagtttgggttcctgggtgtgtcctgaggattggactcacagcttgcattttaggaaggactgcacagaagccagtagagtgtatccttttcattgcatcattgttttccctttgtaattaataagtgtcttgagcctggtgctgtggcacatgcctgtaatcccagcgctttgggaggcggaggtaggaggacggcttgagcccaagagttcaagaccagcctgggcaacagagtgagacccctgtctacaaaaaaatgcaaaaattagccaggtatggtggcatgtgcctatagttctagctactcaagagactgaagtgtgaggattgctttaacctgggaggttgaggctgcagtgagccagagtcttgccactgcattccagcctgggaatagagcaagaacccatctcaaaaaaataaaaaatgaaatgtatcttgtggcaggtactttgagattatgtacatttcctgtttctcatactttcacaaactagtgttagcatccatcaatgattcctgtctgaaacggcttactgtggtggttgccgaatggtgatgtttgaaagctgtcgtcatcctctacacgttagagaactcttgtattttagagctttttctgctccccatctattcatatatgtatttatatttttaaagaaaaacttattctgacccttattaaagatagcaaggcacttagtgctttgggaggcaaggcaggacgatagcttgaggccaggagcttgagaccagcctgggcaacaaagtgaaacctcatgtctacagaaatttttaaaaattagccaagtgtggtggtgtgagcctgtagtcctagctccgtgggaggctgaggcaggaggatcacttgagtccaggggttcgaggctgcatgattgcaccactgtactccagcctaggtgacagagcaagaccttgtctcagaaaagcaagacaaagggcaggctgttcaggatgatcatgataggtatagggactgctgcaatgggattgtgtagtgggggagacctaggagcaggagtgggggccatgcacggaaaatttaactaagaggaaacatcagggtgcagggggttctggctgaactgacctaacaggattcttgtggaaggccgctagcatcactcctctggaccataaacactcggggagtcccaatctctcctgagcagtgcattggcgccagctttccagatgtgtgtacaccattcgcttttcacccaagatgatttgatgtcttataaaactctgatgaaccatgatggctacacagacattaagtatagacagctatcaagatgggcaacagatgcaagtagtaacagagttaaagacagaacaagatccaaactgctctgaacccgatgcagaaggagtgagccctccccctgtggagtctcagaccccgatggatgtggacaagcaggccatttataggcatccactatttccattattagctttgttgtttgaaaaatgtgaacaatctacacagggctctgaaggcacaacttctgccagttttgatgtagacatcgaaaattttgtaagaaagcaagagaaggaagggaaacctttcttttgtgaagatccagaaaccgataatttaatggtaaaagcaatccaggttttgcgcattcatcttcttgagctggaaaaggttaacgaactctgcaaagatttctgcagtcgatacattgcttgtctgaaaacaaaaatgaacagtgaaactctgttgagtggagagcctggaagcccgtactcaccagtgcagtcccagcagattcaaagtgccatcacaggcaccatcagccctcagggaattgtggtgccggcgtccgcgctgcagcagggaaacgtagccatggcgacggtggcaggtggcacagtgtatcagcctgtcacggtcgtcactccccaaggccaagtggtcacacagacattgtcgcctgggacaattaggatccagaactcccagcttcagttacagttaaaccaagatctcagcatcttgcatcaagatgatggttcatctaagaacaagaggggcgtcctgccaaagcatgccacgaacgtgatgcggtcctggctcttccagcacatcgggcatccctacccaacagaggatgagaaaaaacagattgctgctcagacaaatttgacactactccaagtcaacaactggttcatcaatgccagaagacgaattcttcagccaatgttggattcaagttgttcagagacccccaaaacaaagaaaaaaactgctcagaaccggccagttcagaggttttggcctgattctattgcatcaggagtcgcacagccaccgccgagcgagctcaccatgtcggaaggagctgttgtcaccatcaccacgcccgtgaacatgaacgtggacagccttcagtctctgtcctcggacggggccaccctggcggtgcagcaggtcatgatggcagggcagagcgaggacgagtctgtggacagcacagaggaggatgcgggtgccctggcccctgcccacatcagcgggctggtcttggagaacagtgactccctgcagtaggggcaggagcagacgcacctgactttttggagtttgcacagcaaacattttacacagttttatttctaatatgttttatatgtagatatagaagagtgcacttttgtatttcatagtaagcttaaagcgcgtctttgccggtgcagcgacttctttcaagtgtgtgtgtgtgtgtgtgcgtgtgtgcgtgtgtgtggatttttaaagaaattctttaaaggtttaacgctagattgtgaggaatgacacaccactccctccccaccttgaatccctaattagattaaggaatagcgctgccattttctaaaccgtgatgcggttgtcacttagttctgtggttccagcagatctcagtgggctggttgatttgtgtggcccatggatttgaaagaagctgctgcacccgaaactgccagtgtgcggtgacaacggcacacgcctagactgagtgtggtttcgtcgtgagtggatggacggcaagcttagcaagcctaagtcccctcatgttcagtgagcctgtttcatttgctatatagaaaaagaaactcctatttttaccttgctggaattattggataaaaaagctatttttataaattcgttatgaattggatgatgactatattgaggataaaatttctagagaagaaacaatacatgcttgctattaatatttcaatttggaatgttctgaattgaccaaatttaacgaacctgcccaaagttagctaccgttccatggttctttgctctccccgggtagtgatgaacatttactactataaaagaaacagctatttaatgaaattttgatatctgcaaatttttgttgatatgtaatgctcagattgcattttacacttgatctaaacatatatcgaaagatatctgctaaacaggacttcaggtaagtgaggtgaaatggtagccagtgacccgttaggagctctcaccgtacatactccagtctaatttaaatctgaccacagttgcatggtcgctttaccatgttagctgtgtattgttttaaaagttttaacttcaaaatatgttatgcacagaatgtttattataaactaatataaaatgtgctctaccccattggctcagagctagggcaaacagcagatattcagactttattacttaactagcggacatccctggagtcccagcagcgagttggtctggcgagggcacctcggcagcccccacgggttggctcctacgtttgcgtttgtggctggtctcctggtgtcagtgttctcttgtacgttgttgctttcgacttttcagagccctcctgctcacttgaccacgtgagatttggaataactgtaggacttctgtttcctggtaacaagatgaaccgagagagtgggctgggttctgttttctttggttttgatttgttttcattgtttacttaggagtggtgctttttctcagaaaacaggccacggtgtttcatacagaatgtcttcatatcatctgaaatggtatggctgaagttcatttgtttacagggtcgggaatgtcttcagttcttgagagtcaacagtaatgattggttgtaagccaagggacattttaagctagtgaagagttttttctggaattgatttttcccaaaagaatatattaattaaggttaagaagtcagtgggaaacacacagaaatttattttaaaatctttcaggagctttaactgaaagacttggttatcaagtcttttggggagagaatgacattttttttttgagacagagttttgctcttgttgcccaggctggagggcaatggtgcaatctcagctcactgcaacctccacctcttatgttcaagcaattctccttccttagcctcctgagtagctgggattacaggcatgcgccaccacacccggctaattttgtatttttagtagagatgggtttctccatgttggtcgggctggtctcgaactcccgacctcaggtgatctgcctgcctcagcctcccaaagtgctgggattacaggtgtgagccaccgcgcccggccgagaatgacatcttaaagccaccattgcgttcctcatttgtgaactgtcttctcatattttaagtcaagtctataagatcatttttaacctaagttccaactttgttggactccttaaaataagcacccatgaaagccagccagcccttcctccttccctcaccaccctccgtctcttcgtccctcaccaccctccgtctcttcggctgcctgctctttagtgtagattagtggaagccattcacagaatgtagactcatgtataggtcaccgtttctttcccccactagaaatcacattcactaagcagtggattgaatttaagagtgctgcccctgcccggcgcagtagggcgtgcctctagttccagctactcgggagtctgaggcagaggatggcatgtgccaggagtttgaggctgcagtgcactatgcttgcacctgtgaatagccactgcactccatcttgggcaacacagtgagacccccatctataaaaagagagcactgcctgaaccttggtggcactgggaagctctggcctgagagttaaacacccatgctgaatggtacagtgtgcattctctccagctgaaaactttcttcaactttcctaaattcttactaaattcagaggaataggataaagatcacttagagaaagggtgcttatggacatagcctgagtttcctttaacctctctccaatgggtgcttttaactagcttctacatggcaagctgtttcagtttgcaaaatcactgcccagcatgtttgaggtcagttggcaccttaaaacacctgttctccagcccttggacagtggagagaatctgtaaaagtgtgaccccctctaagatttcgttttaaatgatcagattcggttccagttttattcttgttgagtttttccctatgaaggctccttttgaatgtgtcttgagacccaaattgagcatgttgctgttattcctgccctgcacctgtggagcaggagtggcagggctggctgtgctgggttccagctcgctcctgccgagggactagcttggcctttgcgctttgattccagatagtaagatgagtggaagtgtttatcgagcatgcaaaagaaaccctcacggctaacggctctgggagttgtgtctgtgtgacctgagagtgatccatctcctgcctgtgtgaggtagcagtgggcacttttcattgagacaaactccagggtgtccagagggggttctgccccttgtgaaggcccattcctggcacttagagacagaaagaactcagcaatctttcgttctagttatattcggtctttgaaactgacaatctttgaaatgtgaatactgtaacaatatgttttcttggattgttgtctttaaaaaggatttttgtgaagcaattgatttatcaaagcaaaaaaattaaaaatagaaacttgctttatggatgttttattttataaagctcatgtcaccaaaagctgcttctccattttatgtaaaacattgagaatgttttcatgttttctggtgacatgtagggtctgtagtcacccctgcatattgagaaactaggaccacactgcatcggactagtcaggtccatttacatgtccaagaatcttttcttaaattccttactttgttcattcattggctgttcaggcagaaaatggaaacaggtagcttttatgttttttattatagttttccacaaatctaattattttgatagttacaagaagataatgattcatcagtaagctaacataatccctttcatagttcatatt
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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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