LOCUS       NM_006855               1694 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens KDEL endoplasmic reticulum protein retention receptor
            3 (KDELR3), transcript variant 1, mRNA.
ACCESSION   NM_006855
VERSION     NM_006855.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1694)
  AUTHORS   Bauer,A., Santen,L., Schmitt,M.J., Shaebani,M.R. and Becker,B.
  TITLE     Cell-type-specific differences in KDEL receptor clustering in
            mammalian cells
  JOURNAL   PLoS One 15 (7), e0235864 (2020)
   PUBMED   32645101
  REMARK    GeneRIF: Cell-type-specific differences in KDEL receptor clustering
            in mammalian cells.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1694)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 1694)
  AUTHORS   Raykhel,I., Alanen,H., Salo,K., Jurvansuu,J., Nguyen,V.D.,
            Latva-Ranta,M. and Ruddock,L.
  TITLE     A molecular specificity code for the three mammalian KDEL receptors
  JOURNAL   J Cell Biol 179 (6), 1193-1204 (2007)
   PUBMED   18086916
  REMARK    Erratum:[J Cell Biol. 2008 Feb 11;180(3):645]
REFERENCE   4  (bases 1 to 1694)
  AUTHORS   Collins,J.E., Wright,C.L., Edwards,C.A., Davis,M.P., Grinham,J.A.,
            Cole,C.G., Goward,M.E., Aguado,B., Mallya,M., Mokrab,Y.,
            Huckle,E.J., Beare,D.M. and Dunham,I.
  TITLE     A genome annotation-driven approach to cloning the human ORFeome
  JOURNAL   Genome Biol 5 (10), R84 (2004)
   PUBMED   15461802
REFERENCE   5  (bases 1 to 1694)
  AUTHORS   Collins,J.E., Goward,M.E., Cole,C.G., Smink,L.J., Huckle,E.J.,
            Knowles,S., Bye,J.M., Beare,D.M. and Dunham,I.
  TITLE     Reevaluating human gene annotation: a second-generation analysis of
            chromosome 22
  JOURNAL   Genome Res 13 (1), 27-36 (2003)
   PUBMED   12529303
REFERENCE   6  (bases 1 to 1694)
  AUTHORS   Jia,L., Young,M.F., Powell,J., Yang,L., Ho,N.C., Hotchkiss,R.,
            Robey,P.G. and Francomano,C.A.
  TITLE     Gene expression profile of human bone marrow stromal cells:
            high-throughput expressed sequence tag sequencing analysis
  JOURNAL   Genomics 79 (1), 7-17 (2002)
   PUBMED   11827452
REFERENCE   7  (bases 1 to 1694)
  AUTHORS   Dunham,I., Shimizu,N., Roe,B.A., Chissoe,S., Hunt,A.R.,
            Collins,J.E., Bruskiewich,R., Beare,D.M., Clamp,M., Smink,L.J.,
            Ainscough,R., Almeida,J.P., Babbage,A., Bagguley,C., Bailey,J.,
            Barlow,K., Bates,K.N., Beasley,O., Bird,C.P., Blakey,S.,
            Bridgeman,A.M., Buck,D., Burgess,J., Burrill,W.D., O'Brien,K.P. et
            al.
  TITLE     The DNA sequence of human chromosome 22
  JOURNAL   Nature 402 (6761), 489-495 (1999)
   PUBMED   10591208
  REMARK    Erratum:[Nature 2000 Apr 20;404(6780):904]
REFERENCE   8  (bases 1 to 1694)
  AUTHORS   Pelham,H.R.
  TITLE     The dynamic organisation of the secretory pathway
  JOURNAL   Cell Struct Funct 21 (5), 413-419 (1996)
   PUBMED   9118249
  REMARK    Review article
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from Z97056.1, AL035081.1 and
            AI753246.1.
            
            On Nov 22, 2018 this sequence version replaced NM_006855.3.
            
            Summary: This gene encodes a member of the KDEL endoplasmic
            reticulum protein retention receptor family. Retention of resident
            soluble proteins in the lumen of the endoplasmic reticulum (ER) is
            achieved in both yeast and animal cells by their continual
            retrieval from the cis-Golgi, or a pre-Golgi compartment. Sorting
            of these proteins is dependent on a C-terminal tetrapeptide signal,
            usually lys-asp-glu-leu (KDEL) in animal cells, and his-asp-glu-leu
            (HDEL) in S. cerevisiae. This process is mediated by a receptor
            that recognizes, and binds the tetrapeptide-containing protein, and
            returns it to the ER. In yeast, the sorting receptor encoded by a
            single gene, ERD2, is a seven-transmembrane protein. Unlike yeast,
            several human homologs of the ERD2 gene, constituting the KDEL
            receptor gene family, have been described. KDELR3 was the third
            member of the family to be identified. Alternate splicing results
            in multiple transcript variants. [provided by RefSeq, Jul 2013].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC001277.1, SRR5189661.53921.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000216014.9/ ENSP00000216014.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-13                Z97056.1           79279-79291
            14-1687             AL035081.1         1-1674
            1688-1694           AI753246.1         17-23               c
FEATURES             Location/Qualifiers
     source          1..1694
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="22"
                     /map="22q13.1"
     gene            1..1694
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="KDEL endoplasmic reticulum protein retention
                     receptor 3"
                     /db_xref="GeneID:11015"
                     /db_xref="HGNC:HGNC:6306"
                     /db_xref="MIM:619900"
     exon            1..229
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /inference="alignment:Splign:2.1.0"
     CDS             139..783
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="isoform a is encoded by transcript variant 1; KDEL
                     receptor 3; ER lumen protein-retaining receptor 3; KDEL
                     (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention
                     receptor 3"
                     /codon_start=1
                     /product="ER lumen protein-retaining receptor 3 isoform a"
                     /protein_id="NP_006846.1"
                     /db_xref="CCDS:CCDS13972.1"
                     /db_xref="GeneID:11015"
                     /db_xref="HGNC:HGNC:6306"
                     /db_xref="MIM:619900"
                     /translation="MNVFRILGDLSHLLAMILLLGKIWRSKCCKGISGKSQILFALVF
                     TTRYLDLFTNFISIYNTVMKVVFLLCAYVTVYMIYGKFRKTFDSENDTFRLEFLLVPV
                     IGLSFLENYSFTLLEILWTFSIYLESVAILPQLFMISKTGEAETITTHYLFFLGLYRA
                     LYLANWIRRYQTENFYDQIAVVSGVVQTIFYCDFFYLYVTKVLKGKKLSLPMPI"
     exon            230..330
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /inference="alignment:Splign:2.1.0"
     exon            331..489
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /inference="alignment:Splign:2.1.0"
     exon            490..742
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /inference="alignment:Splign:2.1.0"
     exon            743..1694
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1066..1071
                     /regulatory_class="polyA_signal_sequence"
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="hexamer: CATAAA"
     polyA_site      1085
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="major polyA site"
     regulatory      1669..1674
                     /regulatory_class="polyA_signal_sequence"
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="hexamer: AATAAA"
     polyA_site      1694
                     /gene="KDELR3"
                     /gene_synonym="ERD23; ERD2L3"
                     /note="major polyA site"
ORIGIN      
        1 gcgatcgcgg agctgtgagg cgcaggcagg gctctggggc acctagagac cggggccgga
       61 gacgtggcag ccgccctgcc cgccagaaag tttcctagaa gtttgctggg cgcgggcgca
      121 cgactgactg gctggaccat gaacgtgttc cgaatcctcg gcgacctgag ccacctcctg
      181 gccatgatct tgctgctggg gaagatctgg aggtccaagt gctgcaaggg catctctggg
      241 aagagccaga tcctgtttgc tctcgtcttc accaccaggt acctggacct gttcaccaac
      301 ttcatctcca tctacaacac agtaatgaag gtggtttttc tcctctgtgc ctatgttaca
      361 gtgtacatga tatatgggaa attccgtaaa acttttgaca gtgagaatga cacattccgc
      421 ctggagtttc ttctggtccc agtcattggc ctttccttcc ttgaaaacta cagtttcact
      481 ctgctggaga tcctctggac tttctctatc tatctggaat cagtggctat cctgccccag
      541 ctcttcatga tcagcaagac tggagaggct gagaccataa ctactcacta cctgttcttt
      601 ctgggtctgt accgggcact ctacctggct aactggatca ggcggtacca gactgagaat
      661 ttctatgacc aaattgcagt cgtgtctgga gtagtacaaa ccatcttcta ctgtgacttc
      721 ttctacttgt atgtgaccaa agtccttaag ggaaagaagt taagtcttcc aatgccaatc
      781 tgaggacctt cagagacagt ctacgcctta acaagcacat gaaggaaact attttgaatg
      841 ttctctttgg caacttatcc ataatttggg atcaaatgtt aaaaccagaa aagtgtttag
      901 tgtggatttc agcaaaacct gatcatccca cccagaagac cttctcatca atagatcgcc
      961 cttaaagacc cattgtaagg tcataaaaaa cctcggccac ctgcacaaag atggtgcctc
     1021 actgcaacaa gaaaccttaa ggtgtcttac cgacgaaata aaaaacataa atgattgttc
     1081 tccaaggcct gagggcaaga ctcatgatga gcaagtcaac cccaatctgg aacaatgtcc
     1141 ctcctcttag aatgtcccaa ctaaagacca gttaaaatat tagggtacgt tcttgtgaat
     1201 ttccactttc caggtagatg accaaattta ggtggtcaag atataaaggt gtcagctagt
     1261 tttaagtgtg aaacttattt cactttcaca ctgccttcag gccagaagca aaccaaattt
     1321 accaggtttg gctggaggag ttttgtgact catcttttac tggtttgaat tttttcaaac
     1381 cagtggctga tacctgcctt gtacttagta ccttaatacc aataacctaa tggtacttag
     1441 gcgagtacca tttgcacaat cactgtttta cttatgagca gatacagata tatccaaacc
     1501 cttacctact aggtatcctg ctagggtttt caattccaat tcttgtatta agttttttcc
     1561 tttcagtttt aggtgcgaaa gtaatcagtc aatccaatat cccccatctt tgtcttgaaa
     1621 caaaaactgt tttaagacgt ctacgttgaa ttattcagag aattaagcaa taaaagctca
     1681 caccttattg tcaa
//
