LOCUS       NM_001271279            3228 bp    mRNA    linear   ROD 07-MAY-2024
DEFINITION  Rattus norvegicus PBX/knotted 1 homeobox 2 (Pknox2), transcript
            variant 2, mRNA.
ACCESSION   NM_001271279
VERSION     NM_001271279.1
KEYWORDS    RefSeq.
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 3228)
  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 3228)
  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 3228)
  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 3228)
  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 3228)
  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.
            
            Transcript Variant: This variant (2) has an alternate exon in the
            5' UTR and an additional exon in the 5' coding region, which
            results in a downstream start codon, compared to variant 1. The
            resulting isoform (2) has a shorter N-terminus, compared to 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 :: FQ221048.1 [ECO:0000332]
            RNAseq introns              :: partial sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0000350]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-86                JAXUCZ010000008.1  44889101-44889186   c
            87-192              JAXUCZ010000008.1  44884102-44884207   c
            193-301             JAXUCZ010000008.1  44865498-44865606   c
            302-422             JAXUCZ010000008.1  44851809-44851929   c
            423-562             JAXUCZ010000008.1  44850349-44850488   c
            563-734             JAXUCZ010000008.1  44832871-44833042   c
            735-923             JAXUCZ010000008.1  44820833-44821021   c
            924-1053            JAXUCZ010000008.1  44808586-44808715   c
            1054-1151           JAXUCZ010000008.1  44808025-44808122   c
            1152-1271           JAXUCZ010000008.1  44807138-44807257   c
            1272-1348           JAXUCZ010000008.1  44794078-44794154   c
            1349-1527           JAXUCZ010000008.1  44793087-44793265   c
            1528-3228           JAXUCZ010000008.1  44789947-44791647   c
FEATURES             Location/Qualifiers
     source          1..3228
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q22"
     gene            1..3228
                     /gene="Pknox2"
                     /note="PBX/knotted 1 homeobox 2"
                     /db_xref="GeneID:680549"
                     /db_xref="RGD:1590611"
     exon            1..86
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            87..192
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            193..301
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            302..422
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    420..422
                     /gene="Pknox2"
                     /note="upstream in-frame stop codon"
     CDS             423..1763
                     /gene="Pknox2"
                     /note="isoform 2 is encoded by transcript variant 2;
                     homeobox protein PKNOX2; homeobox protein Meis2-like"
                     /codon_start=1
                     /product="homeobox protein PKNOX2 isoform 2"
                     /protein_id="NP_001258208.1"
                     /db_xref="GeneID:680549"
                     /db_xref="RGD:1590611"
                     /translation="

MTATAQPPSKAQAVHIAAPSATASTPVPSAPIDPQAQLEADKRAVYRHPLFPLLTLLFEKCEQATQGSECITSASFDVDIENFVHQQEQEHKPFFSDDPELDNLMVKAIQVLRIHLLELEKVNELCKDFCNRYITCLKTKMHSDNLLRNDLGGPYSPNQPSINLHSQDLLQNSPNSMSGVSNNPQGIVVPASALQQGNIAMTTVNSQVVSGGALYQPVTMVTSQGQVVTQAIPQGAIQIQNTQVNLDLTSLLDNEDKKSKNKRGVLPKHATNIMRSWLFQHLMHPYPTEDEKRQIAAQTNLTLLQVNNWFINARRRILQPMLDASNPDPAPKAKKIKSQHRPTQRFWPNSIAAGVLQQQGGTPGTNPDGSINLDNLQSLSSDNATMAMQQAMMAAHDDSLDGTEEEDEDDMEEEEEEEEELEEEEADELQTTNVSDLGLEHSDSLE"

     misc_feature    621..878
                     /gene="Pknox2"
                     /note="N-terminal of Homeobox Meis and PKNOX1; Region:
                     Meis_PKNOX_N; pfam16493"
                     /db_xref="CDD:465140"
     misc_feature    order(1200..1214,1218..1220,1278..1280,1296..1298,
                     1335..1337,1341..1346,1353..1358,1362..1370)
                     /gene="Pknox2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1206..1208,1215..1217,1344..1346,1353..1358,
                     1365..1367)
                     /gene="Pknox2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1254..1370
                     /gene="Pknox2"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            423..562
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            563..734
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            735..923
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            924..1053
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1054..1151
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1152..1271
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1272..1348
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1349..1527
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
     exon            1528..3228
                     /gene="Pknox2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

acttccttagcttgcacatctccacacagggaaggaaggaggccagagactacagatgcctgctggggaattgcagcgtggacattgtactctccctgtagctgactagaagtgtttctggcccagctggaagtgagaagagggggctgaaccccctgaagaccatcctagaggcggtggcatcatccaacaatcctccatgtgaatcaatcccatgatgcaacatgcctccccagccccagctctgacaatgatggccacgcagaatgtccctcccccaccctaccaggacagcccccagagcacggacacagatcctattatgaactcccaagctgtgatacgcctgtttccttctaagcatacgcattcatttactcgttgactctttttctcatcgaacatcagtcgtttttatttagatgacagcaactgcccagccaccttccaaggcccaggctgttcacatcgcagcaccctcagccaccgccagcacacctgtgcccagtgcccccattgatccccaggcccagcttgaagcagacaagcgagctgtgtacaggcaccctcttttcccgctcctgacgctgctgtttgagaaatgtgaacaggccacccagggctcagagtgcatcacctccgccagctttgatgtggacatcgagaactttgtccaccagcaggagcaggaacacaaacccttcttcagcgatgacccagaactggacaatctgatggtgaaggcgatccaggtcctgaggatccacctgctagagttggaaaaagtcaatgaactctgcaaggacttttgcaaccgttatatcacctgcctcaaaaccaagatgcacagcgataacctgctcaggaatgacctcggggggccctactcccccaaccagccctccataaaccttcactcacaggacctcctgcagaattcccccaattccatgtctggagtctccaataacccccagggaattgtggtcccagcctcagcactccagcagggcaacatcgccatgacaaccgtcaactcacaagtcgtgtcaggtggagccttatatcaaccggttaccatggtaacctcccagggtcaggtggtcacccaagcaatcccccagggagccatccagatccagaacacacaggttaaccttgacctcacctccctcctggacaatgaggataagaagtccaagaacaaacgaggagtcttgcccaagcatgccaccaatataatgcgttcttggctcttccagcatctcatgcacccctacccaaccgaagatgagaagaggcagattgcagcccagacaaacctcaccctcctgcaagtaaacaactggttcatcaatgccaggaggcgcatcctgcagcccatgcttgatgccagcaacccagatcctgctcccaaagccaagaaaatcaagtctcagcaccggcccacccaaagattctggcccaattccattgctgctggagtcctgcagcagcagggtggcaccccagggacgaaccctgatggttccatcaacttggacaacctgcagtccctgtcctcagacaatgccaccatggccatgcagcaggcaatgatggctgcccatgatgactccttggatgggacagaagaagaggatgaagatgatatggaggaggaggaagaggaggaggaggagctggaggaggaggaggctgatgagctacagacaacaaatgtcagcgacctgggcttggaacacagtgactccctggagtagtcaggcagcccagatggcattggtcaccgggcaggaaaggagtgtcatcaggagggttcagggtggggggaagggaatatgggcaggcagcattaagaaagttgggccctagcttccccggaatcatagcttgaagaaatgcagagacaccctgttcctttccaaccaccaagcttcagtgaaaacctagtcccagaccctcagactgcagtgcactccattgccgggggccagtcaaacagcctgtgaagaaagacagcttgagatctggactcaccacaaaccggaggacagatgacacccgtggctccacacggaaaaggacttgagttgtttacaagccctgccctgtgaggtggacaggcgctatttgcagagtggacctttgctaaggggcagacttgggagggaaggatgagagagaaggggtctaacattttcccccaggagaatctgagctcccttgaaagacactcatggacaggagggagcctaaatgcataaccagtggccagaggagtaggagggcctgagacaacaccacacactgcctatcagagtgagacatggatggcacagggctccaacttgccctgccggggccctgtctcttagcacagtggccatggactaaggagagggggaaggaaaccaaagagactccttcttcctctctctcggaaatatattgtcggtgggtccaccctgaagaggttaaaagcaactctccatctgggtcagctctaggaccaagcaggcggcagaacctggatcgggagccatattaagatgactctggggatcgcagcagtccctaagtgatcacatcacagctcctgtaacagtaggacatgatatcttatgagatgctcctaccctcagtggagttcttcagaaacccagcctcctccataagccttgagagaggtggggccagggattcttttcactccgcaggtctccgtgcaaccctctgctcccaagctggcactaccagcttctggccgcctccttcattctattctccagagaaggcagaagaaacagtggaaagcattatcccaatgggaagccagggtctgaagaaggtgctactgctcttcccttcggtacccaacatggcagaggatatagcgcacagctaatctgtacacgccattgtgcttggcgctggaggaactggggcagcctgggaggaagcttcctaccatctgccctcatacacaccctccaagcccagcatggaggatccaggattggcatctgctgctcctgtcccctcccaccctatggctgtgaaagacaggactgaccacacgtgtgttttccattgggtttaatgtgacggatgtgcagtttcatttgtaaatgtgcattggccatctccttcagtgctgggatgtgaacggctatctggctcaaccagaggggacccttgggaccttctgagccttctcctcctcta

//