LOCUS       NM_020170               3680 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens nicalin (NCLN), transcript variant 1, mRNA.
ACCESSION   NM_020170
VERSION     NM_020170.4
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 3680)
  AUTHORS   Sundaram,A., Yamsek,M., Zhong,F., Hooda,Y., Hegde,R.S. and
            Keenan,R.J.
  TITLE     Substrate-driven assembly of a translocon for multipass membrane
            proteins
  JOURNAL   Nature 611 (7934), 167-172 (2022)
   PUBMED   36261522
REFERENCE   2  (bases 1 to 3680)
  AUTHORS   Wang,X. and Wang,Z.
  TITLE     Identification of the soluble EphA7-interacting protein Nicalin as
            a regulator of EphA7 expression
  JOURNAL   Mol Cell Biochem 476 (1), 213-220 (2021)
   PUBMED   32914261
  REMARK    GeneRIF: Identification of the soluble EphA7-interacting protein
            Nicalin as a regulator of EphA7 expression.
REFERENCE   3  (bases 1 to 3680)
  AUTHORS   McGilvray,P.T., Anghel,S.A., Sundaram,A., Zhong,F., Trnka,M.J.,
            Fuller,J.R., Hu,H., Burlingame,A.L. and Keenan,R.J.
  TITLE     An ER translocon for multi-pass membrane protein biogenesis
  JOURNAL   Elife 9, e56889 (2020)
   PUBMED   32820719
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3680)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   5  (bases 1 to 3680)
  AUTHORS   Dettmer,U., Kuhn,P.H., Abou-Ajram,C., Lichtenthaler,S.F.,
            Kruger,M., Kremmer,E., Haass,C. and Haffner,C.
  TITLE     Transmembrane protein 147 (TMEM147) is a novel component of the
            Nicalin-NOMO protein complex
  JOURNAL   J Biol Chem 285 (34), 26174-26181 (2010)
   PUBMED   20538592
REFERENCE   6  (bases 1 to 3680)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   7  (bases 1 to 3680)
  AUTHORS   Kim,Y.C., Wu,Q., Chen,J., Xuan,Z., Jung,Y.C., Zhang,M.Q.,
            Rowley,J.D. and Wang,S.M.
  TITLE     The transcriptome of human CD34+ hematopoietic stem-progenitor
            cells
  JOURNAL   Proc Natl Acad Sci U S A 106 (20), 8278-8283 (2009)
   PUBMED   19416867
REFERENCE   8  (bases 1 to 3680)
  AUTHORS   Haffner,C., Dettmer,U., Weiler,T. and Haass,C.
  TITLE     The Nicastrin-like protein Nicalin regulates assembly and stability
            of the Nicalin-nodal modulator (NOMO) membrane protein complex
  JOURNAL   J Biol Chem 282 (14), 10632-10638 (2007)
   PUBMED   17261586
REFERENCE   9  (bases 1 to 3680)
  AUTHORS   Haffner,C., Frauli,M., Topp,S., Irmler,M., Hofmann,K., Regula,J.T.,
            Bally-Cuif,L. and Haass,C.
  TITLE     Nicalin and its binding partner Nomo are novel Nodal signaling
            antagonists
  JOURNAL   EMBO J 23 (15), 3041-3050 (2004)
   PUBMED   15257293
REFERENCE   10 (bases 1 to 3680)
  AUTHORS   Grimwood,J., Gordon,L.A., Olsen,A., Terry,A., Schmutz,J.,
            Lamerdin,J., Hellsten,U., Goodstein,D., Couronne,O.,
            Tran-Gyamfi,M., Aerts,A., Altherr,M., Ashworth,L., Bajorek,E.,
            Black,S., Branscomb,E., Caenepeel,S., Carrano,A., Caoile,C.,
            Chan,Y.M., Christensen,M., Cleland,C.A., Copeland,A., Dalin,E.,
            Dehal,P., Denys,M., Detter,J.C., Escobar,J., Flowers,D.,
            Fotopulos,D., Garcia,C., Georgescu,A.M., Glavina,T., Gomez,M.,
            Gonzales,E., Groza,M., Hammon,N., Hawkins,T., Haydu,L., Ho,I.,
            Huang,W., Israni,S., Jett,J., Kadner,K., Kimball,H., Kobayashi,A.,
            Larionov,V., Leem,S.H., Lopez,F., Lou,Y., Lowry,S., Malfatti,S.,
            Martinez,D., McCready,P., Medina,C., Morgan,J., Nelson,K.,
            Nolan,M., Ovcharenko,I., Pitluck,S., Pollard,M., Popkie,A.P.,
            Predki,P., Quan,G., Ramirez,L., Rash,S., Retterer,J., Rodriguez,A.,
            Rogers,S., Salamov,A., Salazar,A., She,X., Smith,D., Slezak,T.,
            Solovyev,V., Thayer,N., Tice,H., Tsai,M., Ustaszewska,A., Vo,N.,
            Wagner,M., Wheeler,J., Wu,K., Xie,G., Yang,J., Dubchak,I.,
            Furey,T.S., DeJong,P., Dickson,M., Gordon,D., Eichler,E.E.,
            Pennacchio,L.A., Richardson,P., Stubbs,L., Rokhsar,D.S.,
            Myers,R.M., Rubin,E.M. and Lucas,S.M.
  TITLE     The DNA sequence and biology of human chromosome 19
  JOURNAL   Nature 428 (6982), 529-535 (2004)
   PUBMED   15057824
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC013283.2, AL136567.1, BC008920.2, BC010064.2, BC003076.2,
            AL365369.1, BC025926.1 and BC007275.1.
            
            On Nov 23, 2018 this sequence version replaced NM_020170.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK172848.1, AL136567.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000246117.9/ ENSP00000246117.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-157               BC013283.2         331-487
            158-1687            AL136567.1         42-1571
            1688-1852           BC008920.2         948-1112
            1853-1953           BC013283.2         2183-2283
            1954-1957           BC010064.2         1923-1926
            1958-2456           BC003076.2         698-1196
            2457-3062           AL365369.1         853-1458
            3063-3081           BC025926.1         3025-3043
            3082-3269           BC007275.1         2111-2298
            3270-3589           BC003076.2         2010-2329
            3590-3676           BC008920.2         1120-1206
            3677-3680           BC003076.2         2417-2420
FEATURES             Location/Qualifiers
     source          1..3680
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19p13.3"
     gene            1..3680
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /note="nicalin"
                     /db_xref="GeneID:56926"
                     /db_xref="HGNC:HGNC:26923"
                     /db_xref="MIM:609156"
     exon            1..285
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     CDS             102..1793
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; nicastrin-like protein; nicalin homolog; BOS
                     complex subunit NCLN"
                     /codon_start=1
                     /product="BOS complex subunit NCLN isoform 1 precursor"
                     /protein_id="NP_064555.2"
                     /db_xref="CCDS:CCDS32869.1"
                     /db_xref="GeneID:56926"
                     /db_xref="HGNC:HGNC:26923"
                     /db_xref="MIM:609156"
                     /translation="MLEEAGEVLENMLKASCLPLGFIVFLPAVLLLVAPPLPAADAAH
                     EFTVYRMQQYDLQGQPYGTRNAVLNTEARTMAAEVLSRRCVLMRLLDFSYEQYQKALR
                     QSAGAVVIILPRAMAAVPQDVVRQFMEIEPEMLAMETAVPVYFAVEDEALLSIYKQTQ
                     AASASQGSASAAEVLLRTATANGFQMVTSGVQSKAVSDWLIASVEGRLTGLGGEDLPT
                     IVIVAHYDAFGVAPWLSLGADSNGSGVSVLLELARLFSRLYTYKRTHAAYNLLFFASG
                     GGKFNYQGTKRWLEDNLDHTDSSLLQDNVAFVLCLDTVGRGSSLHLHVSKPPREGTLQ
                     HAFLRELETVAAHQFPEVRFSMVHKRINLAEDVLAWEHERFAIRRLPAFTLSHLESHR
                     DGQRSSIMDVRSRVDSKTLTRNTRIIAEALTRVIYNLTEKGTPPDMPVFTEQMQIQQE
                     QLDSVMDWLTNQPRAAQLVDKDSTFLSTLEHHLSRYLKDVKQHHVKADKRDPEFVFYD
                     QLKQVMNAYRVKPAVFDLLLAVGIAAYLGMAYVAVQHFSLLYKTVQRLLVKAKTQ"
     exon            286..476
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            477..621
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            622..716
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            717..797
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            798..901
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            902..990
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            991..1130
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1131..1309
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1310..1397
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1398..1436
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1437..1600
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1601..1654
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1655..1733
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     exon            1734..3680
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3655..3660
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /note="hexamer: AATAAA"
     polyA_site      3680
                     /gene="NCLN"
                     /gene_synonym="NET59"
                     /note="major polyA site"
ORIGIN      
        1 aggaccccgg cggctaccca tgccgaggtg agtccgcggg agccgccgcc gccgccgtcc
       61 cgtcccagct gccgccccgc gcggccccgc cgccggccag gatgctggag gaagcgggcg
      121 aggtgctgga gaacatgctg aaggcgtctt gtctgccgct cggcttcatc gtcttcctgc
      181 ccgctgtgct gctgctggtg gcgccgccgc tgcctgccgc cgacgccgcg cacgagttca
      241 ccgtgtaccg catgcagcag tacgacctgc agggccagcc ctacggcaca cggaatgcag
      301 tgctgaacac ggaggcgcgc acgatggcgg cggaggtgct gagccgccgc tgcgtgctca
      361 tgcggctact ggacttctcc tacgagcagt accagaaggc cctgcggcag tcggcgggcg
      421 ccgtggtcat catcctgccc agggccatgg ccgccgtgcc ccaggacgtc gtccggcaat
      481 tcatggagat cgagccggag atgctggcca tggagaccgc cgtccccgtg tactttgccg
      541 tggaggacga ggccctgctg tctatctaca agcagaccca ggctgcctcc gcctcccagg
      601 gctccgcctc tgctgctgaa gtactgctgc gcacggccac tgccaacggc ttccagatgg
      661 tcaccagcgg ggtacagagc aaggccgtga gtgactggct gattgccagc gtggaggggc
      721 ggctgacggg gctgggcgga gaggaccttc ccaccatcgt catcgtggcc cactacgacg
      781 cctttggagt ggccccctgg ctgtcgctgg gcgcggactc caacgggagc ggcgtctctg
      841 tgctgctgga gctggcacgc ctcttctccc ggctctacac ctacaagcgc acgcacgccg
      901 cctacaacct cctgttcttt gcgtctggag gaggcaagtt taactaccag ggaaccaagc
      961 gctggctgga agacaacctg gaccacacag actccagcct gcttcaggac aatgtggcct
     1021 tcgtgctgtg cctggacacc gtgggccggg gcagcagcct gcacctgcac gtgtccaagc
     1081 cgcctcggga gggcaccctg cagcacgcct tcctgcggga gctggagacg gtggccgcgc
     1141 accagttccc tgaggtacgg ttctccatgg tgcacaagcg gatcaacctg gcggaggacg
     1201 tgctggcctg ggagcacgag cgcttcgcca tccgccgact gcccgccttc acgctgtccc
     1261 acctggagag ccaccgtgac ggccagcgca gcagcatcat ggacgtgcgg tcccgggtgg
     1321 attctaagac cctgacccgt aacacgagga tcattgcaga ggccctgact cgagtcatct
     1381 acaacctgac agagaagggg acacccccag acatgccggt gttcacagag cagatgcaga
     1441 tccagcagga gcagctggac tcggtgatgg actggctcac caaccagccg cgggccgcgc
     1501 agctggtgga caaggacagc accttcctca gcacgctgga gcaccacctg agccgctacc
     1561 tgaaggacgt gaagcagcac cacgtcaagg ctgacaagcg ggacccagag tttgtcttct
     1621 acgaccagct gaagcaagtg atgaatgcgt acagagtcaa gccggccgtc tttgacctgc
     1681 tcctggctgt tggcattgct gcctacctcg gcatggccta cgtggctgtc cagcacttca
     1741 gcctcctcta caagaccgtc cagaggctgc tcgtgaaggc caagacacag tgacacagcc
     1801 acccccacag ccggagcccc cgccgctcca cagtccctgg ggccgagcac gagtgagtgg
     1861 acactgcccc gccgcgggcg gccctgcagg gacaggggcc ctctccctcc ccggcggtgg
     1921 ttggaacact gaattacaga gcttttttct gttgctctcc gagactgggg ggggattgtt
     1981 tcttcttttc cttgtctttg aacttccttg gaggagagct tgggagacgt cccggggcca
     2041 ggctacggac ttgcggacga gccccccagt cctgggagcc ggccgccctc ggtctggtgt
     2101 aagcacacat gcacgattaa agaggagacg ccgggacccc ctgcccgatc gcgcgcggcc
     2161 tccgcccacc gcctcctgcc gcaaggggcc tggactgcag gcctgacctg ctccctgctc
     2221 cgtgtctgtc ctaggacgtc ccctcccgct ccccgatggt ggcgtggaca tggttattta
     2281 tctctgctcc ttcttgcctg gaggagggca gtgccagccc tggggttctg ggattccagc
     2341 cctcctggag ccttttgttc cccatgtggt ctcagtgacc cgtccccctg acagtgggct
     2401 cggggagctg catcacccag ccttcccctt ctccgactgc agggtctgat gtcatcattg
     2461 acagcctttg cttcgtgggg gcctggcagg gcccctgcct ccccgacccc cgacccactg
     2521 caaatccccg ttcccctgca ctcctcttct cccagcccat ccctccggcc cctgtgcctc
     2581 tgcggcccca gcccagctcc cagggccgtc acctgcttgg ccctggccca gctccctgcc
     2641 ctgagtcctg agccagtgcc tggtgtttcc tgggctcggt actgggcccc caggccatcc
     2701 aggctttgcc acggccagtt ggtcctccct ggggaactgg gtgcgggtgg agtactggga
     2761 ggcaggaggt ggcccgggga ggccttgtgg ctcctcccct cgctcctcgc cctgggcctc
     2821 agcttcctca tcaatagaaa ggatgtgttc ggggtggggg cgtcaggtga gaacgtttgc
     2881 tgggaaggag aggacttggg gcatggcctc tggggccacc cttcctggaa ctcagagagg
     2941 aaggtccggg ccctcgggaa gccttggaca gaaccctcca ccccgcagac caggcgtcgt
     3001 gtgtgtgtgg gagagaagga ggcccgtgtt gagctcaggg agaccccggt gtgtccgttc
     3061 tttagcaata taacctaccc agtgcgtgcc gagcaggctt ggtggggaag ggacttgagc
     3121 tgggcaagtc ctggcctggc acccgcagcc gtctcccttc cgtggcccag ggaggtgttt
     3181 gctgtccgaa ggacctgggc cggcccatgg gagcctgggg ttctgtccag ataggaccag
     3241 ggggtctcac tttggccacc agttcttcgg ccagcacctc tgccctccag aacctgcagc
     3301 ctggaggggt gaggggacaa ccacccctct ttcctccagg ttggcagggg accctcttct
     3361 cccgtctgcc ctgcgggttg cccgcctcct ccagagactt gcccaagggc ccatcaccac
     3421 tggcctctgg gcacttgtgc tgagactctg ggacccaggc agctgccacc ttgtcaccat
     3481 gagagaattt ggggagtgct tgcatgctag ccagcaggct cctgtctggg tgccacgggg
     3541 ccagcatttt ggagggagct tccttccttc cttcctggac aggtcgtcat gatggatgca
     3601 ctgactgacc gtctggggct caggctggtg tgggatgcag ccggccgatg agaaaataaa
     3661 gccatattga atgatcgcca
//
