LOCUS       NM_001385449            5416 bp    mRNA    linear   PRI 03-OCT-2024
DEFINITION  Homo sapiens retrotransposon Gag like 9 (RTL9), transcript variant
            1, mRNA.
ACCESSION   NM_001385449 XM_011530998
VERSION     NM_001385449.1
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 5416)
  AUTHORS   Brandt,J., Schrauth,S., Veith,A.M., Froschauer,A., Haneke,T.,
            Schultheis,C., Gessler,M., Leimeister,C. and Volff,J.N.
  TITLE     Transposable elements as a source of genetic innovation: expression
            and evolution of a family of retrotransposon-derived neogenes in
            mammals
  JOURNAL   Gene 345 (1), 101-111 (2005)
   PUBMED   15716091
REFERENCE   2  (bases 1 to 5416)
  AUTHORS   Brandt,J., Veith,A.M. and Volff,J.N.
  TITLE     A family of neofunctionalized Ty3/gypsy retrotransposon genes in
            mammalian genomes
  JOURNAL   Cytogenet Genome Res 110 (1-4), 307-317 (2005)
   PUBMED   16093683
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL031319.5 and AC000113.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jul 17, 2020 this sequence version replaced XM_011530998.2.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            CDS exon combination :: BC117184.1, SRR14038192.1190320.1
                                    [ECO:0000331]
            RNAseq introns       :: single sample supports all introns
                                    SAMEA1968968, SAMEA2148093 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000520821.6/ ENSP00000430395.2
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-69                AL031319.5         78116-78184
            70-185              AC000113.1         85659-85774         c
            186-4283            AC000113.1         76263-80360         c
            4284-5416           AC000113.1         74593-75725         c
FEATURES             Location/Qualifiers
     source          1..5416
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xq23"
     gene            1..5416
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /note="retrotransposon Gag like 9"
                     /db_xref="GeneID:57529"
                     /db_xref="HGNC:HGNC:29245"
                     /db_xref="MIM:300965"
     exon            1..69
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /inference="alignment:Splign:2.1.0"
     exon            70..185
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /inference="alignment:Splign:2.1.0"
     exon            186..4283
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /inference="alignment:Splign:2.1.0"
     CDS             237..4403
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /note="retrotransposon gag domain-containing protein 1;
                     tumor antigen BJHCC23; tumor antigen BJ-HCC-23; Sushi-Ichi
                     retrotransposon homolog 10; mammalian
                     retrotransposon-derived 9; retrotransposon gag domain
                     containing 1"
                     /codon_start=1
                     /product="retrotransposon Gag-like protein 9"
                     /protein_id="NP_001372378.1"
                     /db_xref="CCDS:CCDS14552.1"
                     /db_xref="GeneID:57529"
                     /db_xref="HGNC:HGNC:29245"
                     /db_xref="MIM:300965"
                     /translation="MSIPLHSLRFNNTMREENVEPQNKQMAFCRPMTETRADVQILHS
                     HVQLPIVSTSASDPGGTSTQLMTSPVFDTMSAPLMGVPNSGALSPPLMPASDSGALSP
                     LLMPASDSGALSPLLMPALDSGTLSPLLSTSEYGVMSPGMMTIPDFGTMSATLMVAPD
                     SAEISPLAMPAPSSGVVCTPIMSTSSSEAMSTPLMLAPDSGELSPILMQDMNPGVMST
                     QPVPAPSSEAMSPLQITDEDTEAMSKVLMTALASGEISSLLMSGTDSEAISSLIMSAV
                     ASGGTSPQPTSTQNSGGIPTPLMSDLDSGIMSSLLMSSPGSEVMSTPLLSVPDAGEMS
                     TLPKPAPDAEAMSPALMTALPSGVMPTQTMPAPGSGAMSPWSTQNVDSEMMSNPPVRA
                     TASGVMSAPPVRALDSGAMSTPLMGAPASGNMSTLQKTVPASGAMTTSLMTVPSSGVM
                     STEQMSATASRVMSAQLTMAKTSGAMPTGSMKAVAKQYKRATASGKMSTPLRRAPTSG
                     AMSTQPVTATASETMSMPQLTVPASGSMSMLQMRAPVSEAMSMPQMRTMASGLTSAAQ
                     MKAMTSGAMSTPLMTAQTSGSTSTLLMRDTASGVMSCPQMRSLASGALSKPLMTPKAS
                     GTMFTEKMTTTASEAMPTLLMRDTVSGALSMPQMTDTASGGLSASLMRDTASGAMSTS
                     QMTATVSGGMSMPLMRAQDPGVMPASLMRAKVSGKMLSQPMSTQDPGGMSMSPMKSMT
                     AGGMQMNSPTSDVMSTPTVRAWTSETMSTPLMRTSDPGERPSLLTRASSSGEMSLPLM
                     RAPASGEIATPLRSPAYGAMSAPQMTATASGMMSSMPQVKAPISGAMSMPLTRSTASG
                     GMSMPLMRAPDSRVTSTSQMMPTASGDMCTLPVRAPASGGVSSPLVRAPASGTMSTPL
                     RRPSACETVSTELMRASASGHMSTAQTTAMVSGGMSKPLMRAPASGTMPMPLMSAMAS
                     GEMSMPLMETMASGATSTLQTSVANSRSMSLSQTTYTVSGRMATAPIRASASGARSTS
                     FMRASVSGSMPMPLPRATASGCGMGMSMPQMTATDSRGMSTPLMRASGPGTMSTPQTA
                     FGVMSTPEIKATDSGEASTSHINITASGSKPTSHMTATTPETAKPPPKEVPSFGMLTP
                     ALCYLLEEQEAARGSCSVEEEMEIDEEKQMKGFLDDSERMAFLVSLHLGAAERWFILQ
                     MEVGEPLSHENKSFLRRSQGIYDSLSEIDILSAVLCHPKQGQKSVRQYATDFLLLARH
                     LSWSDAILRTRFLEGLSEAVTTKMGRIFLKVAGSLKELIDRSLYTECQLAEEKDSPGN
                     SSQVLPTACKRNNEEAMGNELSSQQQTEEHQHVSKRCYYLKEHGDPQEGLHDHLGQST
                     GHHQKAHTNK"
     exon            4284..5416
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5392..5397
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /note="hexamer: AGTAAA"
     polyA_site      5416
                     /gene="RTL9"
                     /gene_synonym="MAR9; MART9; RGAG1; SIRH10"
                     /note="major polyA site"
ORIGIN      
        1 agaactttcg tgagccctgc tccaggtccc aggagaaagt gccagccatg aggactggag
       61 tattgcctgc ccttcagaga cttgaagaca gtgtgtgact ctcctgtgag ttaagagcac
      121 tggctgagtc agacagaccc gagtgacaag cccagcttcg ctccctctca gcggtgagag
      181 ccaagatttt cttgcctcct gggctccctc cacactatcc tgtggctgtg gcagatatgt
      241 caataccctt acattcactg cgattcaaca atacaatgag ggaggaaaat gttgagcccc
      301 aaaacaagca gatggccttc tgtagaccaa tgacagagac cagagcagac gtacagattc
      361 tgcattctca tgtacagttg cctatagtct caacttcagc ctcagaccct ggagggacat
      421 ccacacagtt gatgacatct ccagtctttg acaccatgtc tgcacctcta atgggagtac
      481 caaactctgg agcattgtcc ccacccctaa tgccagcctc agactctggg gcactttccc
      541 cattgctaat gccagcctca gactctgggg cactgtcccc attgctaatg ccagccttag
      601 attctggaac attgtcccca ttgctgtcca cttcagagta tggggtaatg tccccaggga
      661 tgatgacaat tcctgatttt ggaacgatgt ccgcaacgct aatggtagca ccagattctg
      721 cagagatatc accattggca atgccagctc catcctctgg agtggtgtgt acacctataa
      781 tgagcacttc atcctctgag gcaatgtcca caccattaat gctagcccca gattctggag
      841 agttatcccc aattctaatg caagatatga atcctggagt gatgtctaca cagccagtgc
      901 cagctcccag ctctgaggca atgtccccat tgcaaattac agatgaagac accgaagcaa
      961 tgtccaaagt gctaatgact gctctagcct ctggagagat atcttcgctg ctaatgtcag
     1021 gcacggactc tgaagcaata tcctcactga taatgtcagc tgtagcttct ggaggtacat
     1081 caccccagcc aacaagcacc caaaactctg ggggaatacc taccccgctc atgtcagatc
     1141 tagactctgg aataatgtca tcgcttttaa tgtcatctcc aggctctgaa gtaatgtcca
     1201 caccgctact gtcagtccca gatgctggag aaatgtccac attaccaaag ccagctccag
     1261 atgctgaagc aatgtcccca gcactaatga cggccctacc ctctggagtg atgcccaccc
     1321 aaacgatgcc agccccaggc tctggggcga tgtccccatg gtcaacacaa aatgtagact
     1381 ctgaaatgat gtctaatccg ccagtgagag caacagcctc tggggtgatg tctgcaccac
     1441 cagtaagagc tttagattct ggagcaatgt ccacaccgct aatgggagcc ccagcctctg
     1501 gaaatatgtc tacattgcaa aagacagttc cagcctctgg agccatgacc acctcactga
     1561 tgacagtccc aagctctgga gtgatgtcca cagagcaaat gtcagccaca gcctctagag
     1621 taatgtccgc acagttaaca atggccaaaa cttctggagc aatgcccaca ggctctatga
     1681 aagccgtggc aaaacaatac aagagagcca cagcctctgg aaagatgtcc acgccactga
     1741 ggagagctcc aacttctgga gcaatgtcca cccaaccagt tacggcaaca gcctctgaaa
     1801 caatgtccat gccacaattg acagtcccag cctctggatc aatgtccatg ctgcaaatga
     1861 gagcccctgt ctctgaagca atgtccatgc cacaaatgag aaccatggcc tcaggattga
     1921 catctgcagc acagatgaaa gccatgactt ctggagcaat gtccacccca ctaatgacag
     1981 cccaaacctc tggatcaaca tccacgctgt taatgagaga cacagcctca ggagtgatgt
     2041 cctgtccaca aatgagatct ctggcctctg gagcattgtc caagccacta atgacaccca
     2101 aagcctcagg aacgatgttc acggagaaaa tgacaaccac agcttctgaa gcaatgccca
     2161 cactgctaat gagagacaca gtttctggag ctctgtccat gccgcaaatg acagacacag
     2221 cctctggagg gttgtctgca tcgctaatga gagacacagc ttctggagca atgtccacat
     2281 cacaaatgac agccacagtc tctggaggga tgtccatgcc actaatgaga gctcaagacc
     2341 caggagtaat gcctgcctca ctaatgagag ccaaagtgtc tggaaagatg ctcagtcagc
     2401 caatgagcac ccaagatcct ggagggatgt ccatgtcgcc catgaagtcc atgaccgctg
     2461 gagggatgca gatgaattcc ccaacctctg atgtgatgtc cacaccaaca gtgagagcct
     2521 ggacctctga aacaatgtcc acaccactaa tgagaacctc agaccctgga gagaggccct
     2581 cactgctcac aagagcttca tcctctggag agatgtccct accactaatg agagctccag
     2641 cttctggaga gatagccacg cctctgagat ccccagctta tggagccatg tctgctccac
     2701 aaatgacagc cacagcctct ggaatgatgt catccatgcc acaagtgaag gctcccatct
     2761 ctggagcaat gtccatgcca ctaacaagat ccacagcctc tggagggatg tccatgccac
     2821 tgatgagagc cccagactct agagtgacat ccacatcaca aatgatgccc acagcttctg
     2881 gagacatgtg cacactacca gtgcgagccc cagcctctgg aggggtgtcc tcaccactag
     2941 taagagctcc agcctctgga actatgtcca caccactaag gagaccctca gcctgtgaga
     3001 ctgtgtccac agagttaatg agagcttcag cctctggaca tatgtccact gcacaaacaa
     3061 cagccatggt ctctggaggg atgtccaagc cattaatgag agccccggcc tctggaacaa
     3121 tgcccatgcc tttaatgtca gccatggctt ctggagagat gtctatgccg ctaatggaaa
     3181 ccatggcctc tggagcaacg tccacattgc aaaccagtgt tgcgaactct agatctatgt
     3241 ccttgtcaca aacaacatat accgtgtctg gaaggatggc cacagcgcca attagagcct
     3301 ctgcttctgg agcaaggtcc acatcattta tgagagcctc agtttctgga tcgatgccca
     3361 tgccactacc aagagccaca gcctctggat gtggcatggg tatgtccatg ccacaaatga
     3421 cagccacaga ctctagaggg atgtccacac cactaatgag ggcctcaggc cctggaacaa
     3481 tgtccacacc acagacagcc tttggagtga tgtccactcc ggaaatcaaa gccacagact
     3541 ctggagaggc atccacctct cacattaaca tcacagcctc tggatcaaag cccacatcgc
     3601 acatgactgc cacaactcct gaaactgcga aaccaccacc aaaggaagtg ccatccttcg
     3661 gaatgttgac cccagcactc tgctacctct tagaagagca ggaagcagcc cggggctcat
     3721 gctctgtgga ggaagagatg gagattgatg aggagaagca aatgaagggg tttttggacg
     3781 attcagagag aatggcattt ctggtatctc ttcatctggg agcagcagag aggtggttca
     3841 tcttgcaaat ggaggtagga gaacctctct cacatgaaaa taaatctttc ctgagaagat
     3901 cccagggcat atatgactcc ctatctgaga tagacatcct cagtgctgtt ctttgccatc
     3961 ccaaacaggg ccaaaagtca gtcaggcagt atgccactga cttcctgctg ctggcccgac
     4021 atttgtcttg gtctgatgcc attctacgga ccaggtttct ggaaggactc tcagaagctg
     4081 ttaccaccaa aatgggtcgg atcttcctga aggtggctgg cagcctaaag gagctgatag
     4141 acaggtctct gtacaccgag tgccagctgg ctgaagagaa ggattcccca ggcaactcaa
     4201 gccaggttct gccaacagcc tgtaagcgga ataatgagga ggccatgggg aatgaactga
     4261 gctctcagca gcagactgag gagcaccagc atgtttccaa acgctgttac tacctgaaag
     4321 agcatggaga cccccaagaa ggtcttcatg atcaccttgg acagagcaca ggccatcatc
     4381 agaaggccca taccaacaag taaaactcca tggaatcttc tcctgtgata tctgactcga
     4441 ccgctaactg gaggactggt tcctggaccc attccattaa actacattat aaaccttgtt
     4501 gccttcaccc ttcagcctcc cgctccaggc acatcccacc ttacctctca cttggctgat
     4561 ttgaccttct ctttcaccca catgcctaag acctgccctg acaatcagag tagggactac
     4621 aagagtgtat ggtgtatgag gttctgaact cccatcacca ccgaggccag tcctagttct
     4681 tggtccaggg agaagtctag gcaggataaa tcatatctta cctcaaaaaa cccttagcgt
     4741 atcttgccat gtgtcagcag gcaaacttga ggaagccctg gttctatttc acctggcagg
     4801 ggagcctata aggagagcga tgcccactcc tataccaccc ttgtaaccca gtagacttgc
     4861 cccatatgcc ccaactcata gcacctaaaa tgggtctcca gggtccttgc cctgtttata
     4921 gtatccatcc tgaaccattc gttttgaccc ataataatag tgatagtata atggctacca
     4981 gttattgata atgtatcatg tgacaggcat tgggctaaac tcttgacaag caccatctca
     5041 ctacattctt acagtaacac aacttgttct tgtgttgtca gcttctgacc tcttgatctg
     5101 ttgtttatgg cctttgtctt gtccctcagt gggggttctc tagctctgac ctctgggtga
     5161 ccccctcagt tgttgattgc tctcactccc cttggctgtt gtgcttcatg gccagcactc
     5221 ttgatgaggg tcttggtcta taaacaggca tagatagcta gaacataatg tgagcagtgt
     5281 ttgccttcag gtggtggggt tatgggtagt ttttattttc ttccttctac ttctctatac
     5341 atttcagatt ctctacagta agcatgtgtt acatttgtaa ttataaaagt aagtaaactt
     5401 catttatgaa aaaaga
//
