LOCUS       NM_010545               1239 bp    mRNA    linear   ROD 15-APR-2025
DEFINITION  Mus musculus CD74 antigen (invariant polypeptide of major
            histocompatibility complex, class II antigen-associated) (Cd74),
            transcript variant 2, mRNA.
ACCESSION   NM_010545
VERSION     NM_010545.3
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1239)
  AUTHORS   Tang,Z., Hu,J., Li,X.C., Wang,W., Zhang,H.Y., Guo,Y.Y., Shuai,X.,
            Chu,Q., Xie,C., Lin,D. and Zhong,B.
  TITLE     A subset of neutrophils activates anti-tumor immunity and inhibits
            non-small-cell lung cancer progression
  JOURNAL   Dev Cell 60 (3), 379-395 (2025)
   PUBMED   39515330
REFERENCE   2  (bases 1 to 1239)
  AUTHORS   Araujo David,B., Atif,J., Vargas E Silva Castanheira,F., Yasmin,T.,
            Guillot,A., Ait Ahmed,Y., Peiseler,M., Hommes,J.W., Salm,L.,
            Brundler,M.A., Surewaard,B.G.J., Elhenawy,W., MacParland,S.,
            Ginhoux,F., McCoy,K. and Kubes,P.
  TITLE     Kupffer cell reverse migration into the liver sinusoids mitigates
            neonatal sepsis and meningitis
  JOURNAL   Sci Immunol 9 (101), eadq9704 (2024)
   PUBMED   39485859
REFERENCE   3  (bases 1 to 1239)
  AUTHORS   Mori,S., Kohyama,M., Yasumizu,Y., Tada,A., Tanzawa,K., Shishido,T.,
            Kishida,K., Jin,H., Nishide,M., Kawada,S., Motooka,D., Okuzaki,D.,
            Naito,R., Nakai,W., Kanda,T., Murata,T., Terao,C., Ohmura,K.,
            Arase,N., Kurosaki,T., Fujimoto,M., Suenaga,T., Kumanogoh,A.,
            Sakaguchi,S., Ogawa,Y. and Arase,H.
  TITLE     Neoself-antigens are the primary target for autoreactive T cells in
            human lupus
  JOURNAL   Cell 187 (21), 6071-6087 (2024)
   PUBMED   39276775
REFERENCE   4  (bases 1 to 1239)
  AUTHORS   Carabana,C., Sun,W., Veludo Ramos,C., Huyghe,M., Perkins,M.,
            Maillot,A., Journot,R., Hartani,F., Faraldo,M.M., Lloyd-Lewis,B.
            and Fre,S.
  TITLE     Spatially distinct epithelial and mesenchymal cell subsets along
            progressive lineage restriction in the branching embryonic mammary
            gland
  JOURNAL   EMBO J 43 (12), 2308-2336 (2024)
   PUBMED   38760574
REFERENCE   5  (bases 1 to 1239)
  AUTHORS   Bonnin,E., Rodrigo Riestra,M., Marziali,F., Mena Osuna,R.,
            Denizeau,J., Maurin,M., Saez,J.J., Jouve,M., Bonte,P.E., Richer,W.,
            Nevo,F., Lemoine,S., Girard,N., Lefevre,M., Borcoman,E.,
            Vincent-Salomon,A., Baulande,S., Moreau,H.D., Sedlik,C., Hivroz,C.,
            Lennon-Dumenil,A.M., Tosello Boari,J. and Piaggio,E.
  TITLE     CD74 supports accumulation and function of regulatory T cells in
            tumors
  JOURNAL   Nat Commun 15 (1), 3749 (2024)
   PUBMED   38702311
  REMARK    GeneRIF: CD74 supports accumulation and function of regulatory T
            cells in tumors.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1239)
  AUTHORS   Kolk,D.P. and Floyd-Smith,G.
  TITLE     The HXY box regulatory element modulates expression of the murine
            IA antigen-associated invariant chain in L fibroblasts
  JOURNAL   DNA Cell Biol 11 (10), 745-754 (1992)
   PUBMED   1457043
REFERENCE   7  (bases 1 to 1239)
  AUTHORS   Mock,B.A., Contente,S., Kenyon,K., Friedman,R.M. and Kozak,C.A.
  TITLE     The gene for lysyl oxidase maps to mouse chromosome 18
  JOURNAL   Genomics 14 (3), 822-823 (1992)
   PUBMED   1358813
REFERENCE   8  (bases 1 to 1239)
  AUTHORS   Justice,M.J., Gilbert,D.J., Kinzler,K.W., Vogelstein,B.,
            Buchberg,A.M., Ceci,J.D., Matsuda,Y., Chapman,V.M., Patriotis,C.,
            Makris,A. et al.
  TITLE     A molecular genetic linkage map of mouse chromosome 18 reveals
            extensive linkage conservation with human chromosomes 5 and 18
  JOURNAL   Genomics 13 (4), 1281-1288 (1992)
   PUBMED   1354644
REFERENCE   9  (bases 1 to 1239)
  AUTHORS   Wegener,A.M., Letourneur,F., Hoeveler,A., Brocker,T., Luton,F. and
            Malissen,B.
  TITLE     The T cell receptor/CD3 complex is composed of at least two
            autonomous transduction modules
  JOURNAL   Cell 68 (1), 83-95 (1992)
   PUBMED   1531041
REFERENCE   10 (bases 1 to 1239)
  AUTHORS   Byrd,L., Grossmann,M., Potter,M. and Shen-Ong,G.L.
  TITLE     Chronic multifocal osteomyelitis, a new recessive mutation on
            chromosome 18 of the mouse
  JOURNAL   Genomics 11 (4), 794-798 (1991)
   PUBMED   1686018
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK002232.1 and AW123644.1.
            
            On Jul 22, 2006 this sequence version replaced NM_010545.2.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC096435.1, AK020607.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1066              AK002232.1         1-1066
            1067-1239           AW123644.1         1-173               c
FEATURES             Location/Qualifiers
     source          1..1239
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 34.41 cM"
     gene            1..1239
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="CD74 antigen (invariant polypeptide of major
                     histocompatibility complex, class II antigen-associated)"
                     /db_xref="GeneID:16149"
                     /db_xref="MGI:MGI:96534"
     exon            1..162
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     CDS             86..733
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="isoform 2 is encoded by transcript variant 2; H-2
                     class II histocompatibility antigen gamma chain; ia
                     antigen-associated invariant chain; Ia-associated
                     invariant chain; dinucleotide microsatellite; MHC class
                     II-associated invariant chain; class II-associated
                     invariant chain peptide; HLA-DR-GAMMA; histocompatibility:
                     class II antigens, gamma chain of; invariant polypeptide
                     of major histocompatibility complex, class II
                     antigen-associated; ii chain"
                     /codon_start=1
                     /product="H-2 class II histocompatibility antigen gamma
                     chain isoform 2"
                     /protein_id="NP_034675.1"
                     /db_xref="CCDS:CCDS50299.1"
                     /db_xref="GeneID:16149"
                     /db_xref="MGI:MGI:96534"
                     /translation="

MDDQRDLISNHEQLPILGNRPREPERCSRGALYTGVSVLVALLLAGQATTAYFLYQQQGRLDKLTITSQNLQLESLRMKLPKSAKPVSQMRMATPLLMRPMSMDNMLLGPVKNVTKYGNMTQDHVMHLLTRSGPLEYPQLKGTFPENLKHLKNSMDGVNWKIFESWMKQWLLFEMSKNSLEEKKPTEAPPKEPLDMEDLSSGLGVTRQELGQVTL"

     misc_feature    86..421
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="CLIP, MHC2 interacting; Region: MHC2-interact;
                     pfam09307"
                     /db_xref="CDD:462750"
     misc_feature    86..154
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="propagated from UniProtKB/Swiss-Prot (P04441.3);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    110..112
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="Phosphoserine.
                     /evidence=ECO:0007744|PubMed:19144319; propagated from
                     UniProtKB/Swiss-Prot (P04441.3); phosphorylation site"
     misc_feature    173..250
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="propagated from UniProtKB/Swiss-Prot (P04441.3);
                     transmembrane region"
     misc_feature    422..424
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (P04441.3); glycosylation site"
     misc_feature    440..637
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="Class II MHC-associated invariant chain
                     trimerization domain; Region: MHCassoc_trimer; pfam08831"
                     /db_xref="CDD:462614"
     misc_feature    440..442
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (P04441.3); glycosylation site"
     exon            163..332
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            333..412
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            413..475
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            476..568
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            569..659
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            660..722
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     exon            723..1223
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1202..1207
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="hexamer: AATAAA"
     polyA_site      1221
                     /gene="Cd74"
                     /gene_synonym="CLIP; DHLAG; HLADG; Ia-GAMMA; Ii"
                     /note="major polyA site"
ORIGIN      

agacacacagcagcagcagcagcagcagcagcagcaacagcagcagcagcagcagcgcctgtgggaaaaactagaggctagagccatggatgaccaacgcgacctcatctctaaccatgaacagttgcccatactgggcaaccgccctagagagccagaaaggtgcagccgtggagctctgtacaccggtgtctctgtcctggtggctctgctcttggctgggcaggccaccactgcttacttcctgtaccagcaacagggccgcctagacaagctgaccatcacctcccagaacctgcaactggagagccttcgcatgaagcttccgaaatctgccaaacctgtgagccagatgcggatggctactcccttgctgatgcgtccaatgtccatggataacatgctccttgggcctgtgaagaacgttaccaagtacggcaacatgacccaggaccatgtgatgcatctgctcacgaggtctggacccctggagtacccgcagctgaaggggaccttcccagagaatctgaagcatcttaagaactccatggatggcgtgaactggaagatcttcgagagctggatgaagcagtggctcttgtttgagatgagcaagaactccctggaggagaagaagcccaccgaggctccacctaaagagccactggacatggaagacctatcttctggcctgggagtgaccaggcaggaactgggtcaagtcaccctgtgaagacagaggccagctctgcacagcagcagcgccccctgctctcctgtgcctcagcccttcttatgttccctgatgtcacaccccacttcccgtctccctgcaccctggggcttgagactggtgtctgtttcatcgtcccaggacacggcaaatgaagtcagaacagaaggaggacgctggagggccttgctggctaccgctatctaaagggaacccccatttctgacccattagtagtcttgaatgtggggctctgagataaaggcccgcagacagggacaagggatgccctacccttaacctaggctggacacatttgctgccttctcctcaaggaagaagaacccaagcccctcctcccagtaacccctcctcacatcctgccaccccccctcaagccccaccccctttcaggttccttgctcagccaagcttgtcagcagcctgtaggatcatggttcaagtgacaataaaggaagaaagtagaacaaaaaaaaaaaaaaaaa

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