LOCUS       NM_144805               1282 bp    mRNA    linear   ROD 04-JUN-2024
DEFINITION  Mus musculus transmembrane protein 40 (Tmem40), transcript variant
            2, mRNA.
ACCESSION   NM_144805
VERSION     NM_144805.2
KEYWORDS    RefSeq; RefSeq Select.
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 1282)
  AUTHORS   Carninci,P., Waki,K., Shiraki,T., Konno,H., Shibata,K., Itoh,M.,
            Aizawa,K., Arakawa,T., Ishii,Y., Sasaki,D., Bono,H., Kondo,S.,
            Sugahara,Y., Saito,R., Osato,N., Fukuda,S., Sato,K., Watahiki,A.,
            Hirozane-Kishikawa,T., Nakamura,M., Shibata,Y., Yasunishi,A.,
            Kikuchi,N., Yoshiki,A., Kusakabe,M., Gustincich,S., Beisel,K.,
            Pavan,W., Aidinis,V., Nakagawara,A., Held,W.A., Iwata,H., Kono,T.,
            Nakauchi,H., Lyons,P., Wells,C., Hume,D.A., Fagiolini,M.,
            Hensch,T.K., Brinkmeier,M., Camper,S., Hirota,J., Mombaerts,P.,
            Muramatsu,M., Okazaki,Y., Kawai,J. and Hayashizaki,Y.
  TITLE     Targeting a complex transcriptome: the construction of the mouse
            full-length cDNA encyclopedia
  JOURNAL   Genome Res 13 (6B), 1273-1289 (2003)
   PUBMED   12819125
REFERENCE   2  (bases 1 to 1282)
  AUTHORS   Thut,C.J., Rountree,R.B., Hwa,M. and Kingsley,D.M.
  TITLE     A large-scale in situ screen provides molecular evidence for the
            induction of eye anterior segment structures by the developing lens
  JOURNAL   Dev Biol 231 (1), 63-76 (2001)
   PUBMED   11180952
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY767648.1, BY104106.1, CX564997.1, CV561368.1 and AC109169.13.
            
            On Nov 25, 2009 this sequence version replaced NM_144805.1.
            
            Transcript Variant: This variant (2) differs in the 5' UTR compared
            to variant 1. Variants 1 and 2 both encode 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 :: BC019416.1, SRR13861889.127321.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164143 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-13                BY767648.1         274-286
            14-62               BY104106.1         1-49
            63-721              CX564997.1         94-752
            722-842             CV561368.1         721-841
            843-1282            AC109169.13        135332-135771
FEATURES             Location/Qualifiers
     source          1..1282
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 53.68 cM"
     gene            1..1282
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="transmembrane protein 40"
                     /db_xref="GeneID:94346"
                     /db_xref="MGI:MGI:2137870"
     exon            1..62
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    44..46
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="upstream_AUG_codon; putative N-terminal extension:
                     MSPGTPGKV"
     exon            63..140
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             71..748
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="isoform a is encoded by transcript variant 2"
                     /codon_start=1
                     /product="transmembrane protein 40 isoform a"
                     /protein_id="NP_659054.2"
                     /db_xref="CCDS:CCDS39601.1"
                     /db_xref="GeneID:94346"
                     /db_xref="MGI:MGI:2137870"
                     /translation="

MEASGSSSQSQDSGGVHRETEDHYQETELHKHHGKARERYKRDKSSSSSSSSSSSSSSSSSSSSSSSDSSDEDQPSRGPRKHRRRPRRDSLRGADHGELEVLKDELQLCGGAAGEMVPTGESGLRRRGSGSAEGEVEASQLRRLNIKKDDEFFHFVLLCFAIGALLVCYHYYADWFMSLGVGLLTFASLETIGIYFGLVYRIHSVLQGFIPLLQKFRLPGFRRTN"

     misc_feature    71..358
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q4FJU9.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    71..73
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="N-acetylmethionine.
                     /evidence=ECO:0000250|UniProtKB:Q8WWA1; propagated from
                     UniProtKB/Swiss-Prot (Q4FJU9.1); acetylation site"
     misc_feature    383..742
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="Transmembrane protein 40 family; Region: TMEM40;
                     pfam15817"
                     /db_xref="CDD:464892"
     misc_feature    455..457
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="Phosphoserine.
                     /evidence=ECO:0007744|PubMed:21183079; propagated from
                     UniProtKB/Swiss-Prot (Q4FJU9.1); phosphorylation site"
     misc_feature    524..586
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q4FJU9.1);
                     transmembrane region"
     misc_feature    605..667
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="propagated from UniProtKB/Swiss-Prot (Q4FJU9.1);
                     transmembrane region"
     exon            141..272
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            273..347
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            348..401
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            402..437
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            438..470
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            471..518
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            519..590
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            591..665
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            666..728
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            729..1282
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      860..865
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="hexamer: AATAAA"
     polyA_site      886
                     /gene="Tmem40"
                     /gene_synonym="9030407H20Rik"
                     /note="major polyA site"
ORIGIN      

cggccacattcacagtcaacacacagctcaccttgcagctcacatgagcccagggactccagggaaagtcatggaggcttcaggatcttcttcccagtctcaagacagtggtggagtccacagggaaacggaagatcactaccaagagacagagctccacaagcatcatgggaaggcccgggagcgatataagagagacaagtcttcctcttcatcctcatcctcgtcatcttcttcctcctcttcctcctcatcttcttcctcctcctcagacagcagcgatgaggaccagccctccagaggtcccaggaaacacagaaggaggccccgcagggacagcttgcgtggtgccgaccatggggaactggaagtgctaaaggacgagcttcagctctgcggaggtgctgctggggaaatggtgcctactggggagtcaggactccgaaggagaggttccggctcagcggagggagaagtggaggcctctcagttaagaagactgaacataaagaaggatgatgagtttttccattttgtccttctctgctttgccatcggagccttgctggtgtgttaccactactatgcagactggttcatgtccctcggggtcggcctgctcacctttgcttctctcgagaccattggcatctatttcgggctcgtgtaccggatccacagcgtgcttcagggcttcatccccctccttcagaagttccggctgccagggttcaggagaactaactgagatcactgcctgacagcagctgagccagtccccaatgtgaccactgtaaccactgccatgcctgagcccagaagacagaacgacgcgctggaagacaccagaaggccacacaataaagagctctttccttccacgtgatctgagtgtcggcaccagtgggcaggctcttgctctgcagattaacacgcagtctccgtggggaagagaagaggggatagcgtcgggtcagcacggaggagctgggatgccattgctcataggtcaacatgaatcctgggttctgcaggctggcatctgcgggcctgggtctctctggtgtcctcaggccatgcccaggagctcacagttcctgcagagccttcttgggacagccattctgaggcagggagctaccaggctgggttcccaggggaacttgttgcaggtaagacgctggggaccaaagctgcggacccatcatagctgaccaaccctgttgcccttggactcctaaaatccaaataaattttctgttccttgtgcttaaaaaaaaaa

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