LOCUS       NM_001271278            3096 bp    mRNA    linear   ROD 07-MAY-2024
DEFINITION  Rattus norvegicus PBX/knotted 1 homeobox 2 (Pknox2), transcript
            variant 1, mRNA.
ACCESSION   NM_001271278 XM_003750468 XM_003754405 XM_003754406 XM_003754407
            XM_003754408 XM_003754409
VERSION     NM_001271278.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3096)
  AUTHORS   Chen,G., Zhang,F., Xue,W., Wu,R., Xu,H., Wang,K. and Zhu,J.
  TITLE     An association study revealed substantial effects of dominance,
            epistasis and substance dependence co-morbidity on alcohol
            dependence symptom count
  JOURNAL   Addict Biol 22 (6), 1475-1485 (2017)
   PUBMED   27151647
REFERENCE   2  (bases 1 to 3096)
  AUTHORS   Zhang,X., Rowan,S., Yue,Y., Heaney,S., Pan,Y., Brendolan,A.,
            Selleri,L. and Maas,R.L.
  TITLE     Pax6 is regulated by Meis and Pbx homeoproteins during pancreatic
            development
  JOURNAL   Dev Biol 300 (2), 748-757 (2006)
   PUBMED   17049510
REFERENCE   3  (bases 1 to 3096)
  AUTHORS   Ferretti,E., Villaescusa,J.C., Di Rosa,P., Fernandez-Diaz,L.C.,
            Longobardi,E., Mazzieri,R., Miccio,A., Micali,N., Selleri,L.,
            Ferrari,G. and Blasi,F.
  TITLE     Hypomorphic mutation of the TALE gene Prep1 (pKnox1) causes a major
            reduction of Pbx and Meis proteins and a pleiotropic embryonic
            phenotype
  JOURNAL   Mol Cell Biol 26 (15), 5650-5662 (2006)
   PUBMED   16847320
REFERENCE   4  (bases 1 to 3096)
  AUTHORS   Haller,K., Rambaldi,I., Daniels,E. and Featherstone,M.
  TITLE     Subcellular localization of multiple PREP2 isoforms is regulated by
            actin, tubulin, and nuclear export
  JOURNAL   J Biol Chem 279 (47), 49384-49394 (2004)
   PUBMED   15339927
REFERENCE   5  (bases 1 to 3096)
  AUTHORS   Haller,K., Rambaldi,I., Kovacs,E.N., Daniels,E. and Featherstone,M.
  TITLE     Prep2: cloning and expression of a new prep family member
  JOURNAL   Dev Dyn 225 (3), 358-364 (2002)
   PUBMED   12412021
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000008.1.
            
            On or before Sep 13, 2012 this sequence version replaced
            XM_003754405.1, XM_003754406.1, XM_003754407.1, XM_003754408.1,
            XM_003754409.1, XM_003750468.1.
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the genome
            assembly. The genomic coordinates used for the transcript record
            were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360194.800411.1,
                                           SRR26360190.461727.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760386,
                                           SAMEA5760475 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-75                JAXUCZ010000008.1  44979680-44979754   c
            76-181              JAXUCZ010000008.1  44884102-44884207   c
            182-290             JAXUCZ010000008.1  44865498-44865606   c
            291-430             JAXUCZ010000008.1  44850349-44850488   c
            431-602             JAXUCZ010000008.1  44832871-44833042   c
            603-791             JAXUCZ010000008.1  44820833-44821021   c
            792-921             JAXUCZ010000008.1  44808586-44808715   c
            922-1019            JAXUCZ010000008.1  44808025-44808122   c
            1020-1139           JAXUCZ010000008.1  44807138-44807257   c
            1140-1216           JAXUCZ010000008.1  44794078-44794154   c
            1217-1395           JAXUCZ010000008.1  44793087-44793265   c
            1396-3096           JAXUCZ010000008.1  44789947-44791647   c
FEATURES             Location/Qualifiers
     source          1..3096
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q22"
     gene            1..3096
                     /gene="Pknox2"
                     /note="PBX/knotted 1 homeobox 2"
                     /db_xref="GeneID:680549"
                     /db_xref="RGD:1590611"
     exon            1..75
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            76..181
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            182..290
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    192..194
                     /gene="Pknox2"
                     /note="upstream in-frame stop codon"
     CDS             204..1631
                     /gene="Pknox2"
                     /note="isoform 1 is encoded by transcript variant 1;
                     homeobox protein PKNOX2; homeobox protein Meis2-like"
                     /codon_start=1
                     /product="homeobox protein PKNOX2 isoform 1"
                     /protein_id="NP_001258207.1"
                     /db_xref="GeneID:680549"
                     /db_xref="RGD:1590611"
                     /translation="

MMQHASPAPALTMMATQNVPPPPYQDSPQMTATAQPPSKAQAVHIAAPSATASTPVPSAPIDPQAQLEADKRAVYRHPLFPLLTLLFEKCEQATQGSECITSASFDVDIENFVHQQEQEHKPFFSDDPELDNLMVKAIQVLRIHLLELEKVNELCKDFCNRYITCLKTKMHSDNLLRNDLGGPYSPNQPSINLHSQDLLQNSPNSMSGVSNNPQGIVVPASALQQGNIAMTTVNSQVVSGGALYQPVTMVTSQGQVVTQAIPQGAIQIQNTQVNLDLTSLLDNEDKKSKNKRGVLPKHATNIMRSWLFQHLMHPYPTEDEKRQIAAQTNLTLLQVNNWFINARRRILQPMLDASNPDPAPKAKKIKSQHRPTQRFWPNSIAAGVLQQQGGTPGTNPDGSINLDNLQSLSSDNATMAMQQAMMAAHDDSLDGTEEEDEDDMEEEEEEEEELEEEEADELQTTNVSDLGLEHSDSLE"

     misc_feature    <210..>401
                     /gene="Pknox2"
                     /note="biotin carboxyl carrier protein of acetyl-CoA
                     carboxylase; Region: PLN02983"
                     /db_xref="CDD:215533"
     misc_feature    489..746
                     /gene="Pknox2"
                     /note="N-terminal of Homeobox Meis and PKNOX1; Region:
                     Meis_PKNOX_N; pfam16493"
                     /db_xref="CDD:465140"
     misc_feature    order(1068..1082,1086..1088,1146..1148,1164..1166,
                     1203..1205,1209..1214,1221..1226,1230..1238)
                     /gene="Pknox2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1074..1076,1083..1085,1212..1214,1221..1226,
                     1233..1235)
                     /gene="Pknox2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1122..1238
                     /gene="Pknox2"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            291..430
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            431..602
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            603..791
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            792..921
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            922..1019
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1020..1139
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1140..1216
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1217..1395
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1396..3096
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

caggtgaagcctggaacaagactttaaagggtttctggtcttccatgctgctcactagaaaagaggccctgaactgtactctccctgtagctgactagaagtgtttctggcccagctggaagtgagaagagggggctgaaccccctgaagaccatcctagaggcggtggcatcatccaacaatcctccatgtgaatcaatcccatgatgcaacatgcctccccagccccagctctgacaatgatggccacgcagaatgtccctcccccaccctaccaggacagcccccagatgacagcaactgcccagccaccttccaaggcccaggctgttcacatcgcagcaccctcagccaccgccagcacacctgtgcccagtgcccccattgatccccaggcccagcttgaagcagacaagcgagctgtgtacaggcaccctcttttcccgctcctgacgctgctgtttgagaaatgtgaacaggccacccagggctcagagtgcatcacctccgccagctttgatgtggacatcgagaactttgtccaccagcaggagcaggaacacaaacccttcttcagcgatgacccagaactggacaatctgatggtgaaggcgatccaggtcctgaggatccacctgctagagttggaaaaagtcaatgaactctgcaaggacttttgcaaccgttatatcacctgcctcaaaaccaagatgcacagcgataacctgctcaggaatgacctcggggggccctactcccccaaccagccctccataaaccttcactcacaggacctcctgcagaattcccccaattccatgtctggagtctccaataacccccagggaattgtggtcccagcctcagcactccagcagggcaacatcgccatgacaaccgtcaactcacaagtcgtgtcaggtggagccttatatcaaccggttaccatggtaacctcccagggtcaggtggtcacccaagcaatcccccagggagccatccagatccagaacacacaggttaaccttgacctcacctccctcctggacaatgaggataagaagtccaagaacaaacgaggagtcttgcccaagcatgccaccaatataatgcgttcttggctcttccagcatctcatgcacccctacccaaccgaagatgagaagaggcagattgcagcccagacaaacctcaccctcctgcaagtaaacaactggttcatcaatgccaggaggcgcatcctgcagcccatgcttgatgccagcaacccagatcctgctcccaaagccaagaaaatcaagtctcagcaccggcccacccaaagattctggcccaattccattgctgctggagtcctgcagcagcagggtggcaccccagggacgaaccctgatggttccatcaacttggacaacctgcagtccctgtcctcagacaatgccaccatggccatgcagcaggcaatgatggctgcccatgatgactccttggatgggacagaagaagaggatgaagatgatatggaggaggaggaagaggaggaggaggagctggaggaggaggaggctgatgagctacagacaacaaatgtcagcgacctgggcttggaacacagtgactccctggagtagtcaggcagcccagatggcattggtcaccgggcaggaaaggagtgtcatcaggagggttcagggtggggggaagggaatatgggcaggcagcattaagaaagttgggccctagcttccccggaatcatagcttgaagaaatgcagagacaccctgttcctttccaaccaccaagcttcagtgaaaacctagtcccagaccctcagactgcagtgcactccattgccgggggccagtcaaacagcctgtgaagaaagacagcttgagatctggactcaccacaaaccggaggacagatgacacccgtggctccacacggaaaaggacttgagttgtttacaagccctgccctgtgaggtggacaggcgctatttgcagagtggacctttgctaaggggcagacttgggagggaaggatgagagagaaggggtctaacattttcccccaggagaatctgagctcccttgaaagacactcatggacaggagggagcctaaatgcataaccagtggccagaggagtaggagggcctgagacaacaccacacactgcctatcagagtgagacatggatggcacagggctccaacttgccctgccggggccctgtctcttagcacagtggccatggactaaggagagggggaaggaaaccaaagagactccttcttcctctctctcggaaatatattgtcggtgggtccaccctgaagaggttaaaagcaactctccatctgggtcagctctaggaccaagcaggcggcagaacctggatcgggagccatattaagatgactctggggatcgcagcagtccctaagtgatcacatcacagctcctgtaacagtaggacatgatatcttatgagatgctcctaccctcagtggagttcttcagaaacccagcctcctccataagccttgagagaggtggggccagggattcttttcactccgcaggtctccgtgcaaccctctgctcccaagctggcactaccagcttctggccgcctccttcattctattctccagagaaggcagaagaaacagtggaaagcattatcccaatgggaagccagggtctgaagaaggtgctactgctcttcccttcggtacccaacatggcagaggatatagcgcacagctaatctgtacacgccattgtgcttggcgctggaggaactggggcagcctgggaggaagcttcctaccatctgccctcatacacaccctccaagcccagcatggaggatccaggattggcatctgctgctcctgtcccctcccaccctatggctgtgaaagacaggactgaccacacgtgtgttttccattgggtttaatgtgacggatgtgcagtttcatttgtaaatgtgcattggccatctccttcagtgctgggatgtgaacggctatctggctcaaccagaggggacccttgggaccttctgagccttctcctcctcta

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