LOCUS       NM_001398685            1316 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus vesicle trafficking 1 (Vta1), transcript variant
            1, mRNA.
ACCESSION   NM_001398685 XM_006227646
VERSION     NM_001398685.1
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 1316)
  AUTHORS   Boone,M., Mobasheri,A., Fenton,R.A., van Balkom,B.W., Wismans,R.,
            van der Zee,C.E. and Deen,P.M.
  TITLE     The lysosomal trafficking regulator interacting protein-5 localizes
            mainly in epithelial cells
  JOURNAL   J Mol Histol 41 (1), 61-74 (2010)
   PUBMED   20358264
  REMARK    GeneRIF: LIP5 protein expression in a mouse tissue panel and
            various rodent and human tissues were studied.
REFERENCE   2  (bases 1 to 1316)
  AUTHORS   Gonzalez-Begne,M., Lu,B., Han,X., Hagen,F.K., Hand,A.R.,
            Melvin,J.E. and Yates,J.R.
  TITLE     Proteomic analysis of human parotid gland exosomes by
            multidimensional protein identification technology (MudPIT)
  JOURNAL   J Proteome Res 8 (3), 1304-1314 (2009)
   PUBMED   19199708
REFERENCE   3  (bases 1 to 1316)
  AUTHORS   Gonzales,P.A., Pisitkun,T., Hoffert,J.D., Tchapyjnikov,D.,
            Star,R.A., Kleta,R., Wang,N.S. and Knepper,M.A.
  TITLE     Large-scale proteomics and phosphoproteomics of urinary exosomes
  JOURNAL   J Am Soc Nephrol 20 (2), 363-379 (2009)
   PUBMED   19056867
REFERENCE   4  (bases 1 to 1316)
  AUTHORS   Shim,S., Merrill,S.A. and Hanson,P.I.
  TITLE     Novel interactions of ESCRT-III with LIP5 and VPS4 and their
            implications for ESCRT-III disassembly
  JOURNAL   Mol Biol Cell 19 (6), 2661-2672 (2008)
   PUBMED   18385515
REFERENCE   5  (bases 1 to 1316)
  AUTHORS   Ward,D.M., Vaughn,M.B., Shiflett,S.L., White,P.L., Pollock,A.L.,
            Hill,J., Schnegelberger,R., Sundquist,W.I. and Kaplan,J.
  TITLE     The role of LIP5 and CHMP5 in multivesicular body formation and
            HIV-1 budding in mammalian cells
  JOURNAL   J Biol Chem 280 (11), 10548-10555 (2005)
   PUBMED   15644320
REFERENCE   6  (bases 1 to 1316)
  AUTHORS   Fujita,H., Umezuki,Y., Imamura,K., Ishikawa,D., Uchimura,S.,
            Nara,A., Yoshimori,T., Hayashizaki,Y., Kawai,J., Ishidoh,K.,
            Tanaka,Y. and Himeno,M.
  TITLE     Mammalian class E Vps proteins, SBP1 and mVps2/CHMP2A, interact
            with and regulate the function of an AAA-ATPase SKD1/Vps4B
  JOURNAL   J Cell Sci 117 (Pt 14), 2997-3009 (2004)
   PUBMED   15173323
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000001.1.
            
            On Dec 21, 2021 this sequence version replaced XM_006227646.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643429.95.1, SRR26643298.176.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760433,
                                           SAMEA5760476 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-138               JAXUCZ010000001.1  10900598-10900735   c
            139-233             JAXUCZ010000001.1  10882499-10882593   c
            234-361             JAXUCZ010000001.1  10879554-10879681   c
            362-437             JAXUCZ010000001.1  10878799-10878874   c
            438-546             JAXUCZ010000001.1  10869365-10869473   c
            547-723             JAXUCZ010000001.1  10862242-10862418   c
            724-810             JAXUCZ010000001.1  10857346-10857432   c
            811-1316            JAXUCZ010000001.1  10852966-10853471   c
FEATURES             Location/Qualifiers
     source          1..1316
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /map="1p13"
     gene            1..1316
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /note="vesicle trafficking 1"
                     /db_xref="GeneID:292640"
                     /db_xref="RGD:1305031"
     exon            1..138
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     CDS             27..956
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /note="isoform 1 is encoded by transcript variant 1;
                     vacuolar protein sorting-associated protein VTA1 homolog;
                     lysosomal trafficking regulator interacting protein-5;
                     Vps20-associated 1 homolog; vesicle (multivesicular body)
                     trafficking 1"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein VTA1
                     homolog isoform 1"
                     /protein_id="NP_001385614.1"
                     /db_xref="GeneID:292640"
                     /db_xref="RGD:1305031"
                     /translation="MAALAPLPPLPAQFKSIQHHLRTAQEHDKRDPVVAYYCRLYAMQ
                     TGMKIDSKTPECRKFLSKLMDQLEALKKQLGDNEAVTQEIVGCAHLENYALKMFLYAD
                     NEDRAGRFHKNMIKSFYTASLLIDVITVFGELTDENVKHRKYARWKATYIHNCLKNGE
                     TPQAGPVGIEEDNDVEENEDVGATSLPTQPPQPSSSSTYDPSNLAAGSYSGIQIPPGA
                     HAPANTPAEVPHSTGVTSNAVQPSPQTVPAIPAIDPDLYTASQGDVRLTPEDFARAQK
                     YCKYAGSALQYEDVSTAVQNLQKALRLLTTGRE"
     exon            139..233
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            234..361
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            362..437
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            438..546
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            547..723
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            724..810
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
     exon            811..1316
                     /gene="Vta1"
                     /gene_synonym="Lip5; RGD1305031"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aggaagtggc gcttccggga gtggagatgg ctgcgctggc cccgctgccg ccgctgcccg
       61 cgcagtttaa gagcatacag caccatttga gaacggcgca ggagcatgac aagcgagatc
      121 ctgtggtggc ctactactgt cgtttatatg ctatgcaaac tggaatgaag attgatagta
      181 aaactcctga atgtcgtaaa tttttatcaa agctaatgga tcagttagaa gctcttaaga
      241 aacagttggg ggataatgaa gctgttactc aagaaatcgt tggttgtgcc catttggaaa
      301 attatgcttt gaaaatgttc ctgtacgcgg acaacgaaga ccgagctgga cgatttcaca
      361 aaaacatgat caagtccttc tacactgcca gccttttaat agatgtcatc acagtgtttg
      421 gcgagctcac agatgaaaat gtgaaacata gaaagtacgc aaggtggaag gcaacatata
      481 ttcataactg cttaaagaat ggggagactc ctcaagcagg ccctgttgga atagaggaag
      541 ataacgatgt tgaggaaaat gaagatgttg gtgcaacctc tctgcccact cagccacctc
      601 agccatcatc atcctcaacg tacgacccaa gcaacttggc agcaggcagc tacagtggga
      661 tacagatccc tccgggtgca catgctccag ccaatacccc tgcagaagtg ccgcacagca
      721 caggtgtaac aagtaatgct gtccagccta gtccacagac tgtcccagcc attcccgcca
      781 ttgatcctga cctgtacaca gcttcccagg gggatgtccg cctgacccca gaggactttg
      841 ctcgggctca gaagtactgc aagtacgctg gcagtgccct gcagtatgaa gacgtgagca
      901 ccgcggtgca gaacctgcag aaggccctca ggctgctgac aacgggcagg gaatgaagct
      961 ctgctcacgg accccatgcg ttttctgcat agagaactaa cattcagtac actttcctca
     1021 gcctttcagg agcatggttt tacagaagac ctcagttccc cgagtaagac agtggctcct
     1081 gttgtcgtca gctgcctcag ccagttgtca ttgagcgtgt agagctgatg ttagcatcaa
     1141 accccgctat ggaatgtccc tgtagaaaat cctggtgggt atagtatgct ttcttaatgt
     1201 atacacacta aaggacgttt ttgaaaagtc ggtaatattt ggacaaacca tattatgttg
     1261 ctttaatatt ctaaattaaa cttttaataa agattaccag aatgttctag gttgga
//
