LOCUS       NM_028242               2855 bp    mRNA    linear   ROD 23-APR-2024
DEFINITION  Mus musculus HIV TAT specific factor 1 (Htatsf1), transcript
            variant 1, mRNA.
ACCESSION   NM_028242
VERSION     NM_028242.2
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 2855)
  AUTHORS   Wei,C., Kesner,B., Yin,H. and Lee,J.T.
  TITLE     Imprinted X chromosome inactivation at the gamete-to-embryo
            transition
  JOURNAL   Mol Cell 84 (8), 1442-1459 (2024)
   PUBMED   38458200
REFERENCE   2  (bases 1 to 2855)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2855)
  AUTHORS   Corsini,N.S., Peer,A.M., Moeseneder,P., Roiuk,M., Burkard,T.R.,
            Theussl,H.C., Moll,I. and Knoblich,J.A.
  TITLE     Coordinated Control of mRNA and rRNA Processing Controls Embryonic
            Stem Cell Pluripotency and Differentiation
  JOURNAL   Cell Stem Cell 22 (4), 543-558 (2018)
   PUBMED   29625069
REFERENCE   4  (bases 1 to 2855)
  AUTHORS   Hahn,Y.K., Podhaizer,E.M., Farris,S.P., Miles,M.F., Hauser,K.F. and
            Knapp,P.E.
  TITLE     Effects of chronic HIV-1 Tat exposure in the CNS: heightened
            vulnerability of males versus females to changes in cell numbers,
            synaptic integrity, and behavior
  JOURNAL   Brain Struct Funct 220 (2), 605-623 (2015)
   PUBMED   24352707
  REMARK    GeneRIF: Our results predict sex as a determinant of HIV effects in
            brain. Increased behavioral deficits in males correlated with glial
            activation and synaptic damage, both of which are implicated in
            cognitive/motor impairments in patients.
REFERENCE   5  (bases 1 to 2855)
  AUTHORS   Yokoyama,S., Ito,Y., Ueno-Kudoh,H., Shimizu,H., Uchibe,K.,
            Albini,S., Mitsuoka,K., Miyaki,S., Kiso,M., Nagai,A., Hikata,T.,
            Osada,T., Fukuda,N., Yamashita,S., Harada,D., Mezzano,V., Kasai,M.,
            Puri,P.L., Hayashizaki,Y., Okado,H., Hashimoto,M. and Asahara,H.
  TITLE     A systems approach reveals that the myogenesis genome network is
            regulated by the transcriptional repressor RP58
  JOURNAL   Dev Cell 17 (6), 836-848 (2009)
   PUBMED   20059953
REFERENCE   6  (bases 1 to 2855)
  AUTHORS   McKee,A.E., Minet,E., Stern,C., Riahi,S., Stiles,C.D. and
            Silver,P.A.
  TITLE     A genome-wide in situ hybridization map of RNA-binding proteins
            reveals anatomically restricted expression in the developing mouse
            brain
  JOURNAL   BMC Dev Biol 5, 14 (2005)
   PUBMED   16033648
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2855)
  AUTHORS   Smith,M.J., Kulkarni,S. and Pawson,T.
  TITLE     FF domains of CA150 bind transcription and splicing factors through
            multiple weak interactions
  JOURNAL   Mol Cell Biol 24 (21), 9274-9285 (2004)
   PUBMED   15485897
  REMARK    GeneRIF: CA150 FF domains recognize multiple sites within the
            Tat-SF1 protein conforming to the consensus motif
            (D/E)(2/5)-F/W/Y-(D/E)(2/5).
REFERENCE   8  (bases 1 to 2855)
  AUTHORS   Ballif,B.A., Villen,J., Beausoleil,S.A., Schwartz,D. and Gygi,S.P.
  TITLE     Phosphoproteomic analysis of the developing mouse brain
  JOURNAL   Mol Cell Proteomics 3 (11), 1093-1101 (2004)
   PUBMED   15345747
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL672263.13.
            
            On Feb 5, 2011 this sequence version replaced NM_028242.1.
            
            Transcript Variant: This variant (1) represents the longer
            transcript. Variants 1 and 2 encode the same protein.
            
            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##
            Transcript exon combination :: BC037711.1, SRR7652917.528907.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-196               AL672263.13        127225-127420
            197-441             AL672263.13        127609-127853
            442-622             AL672263.13        129153-129333
            623-670             AL672263.13        129700-129747
            671-825             AL672263.13        130155-130309
            826-989             AL672263.13        132541-132704
            990-1089            AL672263.13        133509-133608
            1090-1179           AL672263.13        137772-137861
            1180-1317           AL672263.13        138661-138798
            1318-2855           AL672263.13        139301-140838
FEATURES             Location/Qualifiers
     source          1..2855
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 30.81 cM"
     gene            1..2855
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /note="HIV TAT specific factor 1"
                     /db_xref="GeneID:72459"
                     /db_xref="MGI:MGI:1919709"
     exon            1..196
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            197..441
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     CDS             253..2526
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /note="HIV Tat-specific factor 1 homolog"
                     /codon_start=1
                     /product="17S U2 SnRNP complex component HTATSF1"
                     /protein_id="NP_082518.1"
                     /db_xref="CCDS:CCDS40983.1"
                     /db_xref="GeneID:72459"
                     /db_xref="MGI:MGI:1919709"
                     /translation="MSGNNLSGNDEFDEQLRMQELYGGDPKEGDTQNEPSGEAHSLGQ
                     PPDDTPYEWDLDKKAWFPKITEDFIATYQANYGFSSDGASSSTANVQDANTKAVEEPP
                     QKEVPETPDSKRKGEKRKAESGWFHVEEDRNTNVYVSGLPPDITVDEFIQLMSKFGII
                     MRDPQTEEFKVKLYKDDQGNLKGDGLCCYLKKESVELALKLLDEDEIRGYKLHVEVAK
                     FQLKGEYDASKKKKKCKDYKKKLSLQQKQLDWRPERRAGPNRLRHERVVILKNMFHPM
                     DFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFREPEEADHCIQTLD
                     GRWFGGRQITAQAWDGTTDYQVEETSREREERLRGWEAFLNAPEASRGLRRMDSIAGS
                     ERPGPSRMRHFSEHPSMSNMKAQEATTGMAFEETIDENKFEKAEEGGESEGDASEKDA
                     KEGGSDGDHPEREGGEGCSKKENEEGCPERALEPEEGNPQTEAQENGPEREARKKSKM
                     DYEKNGFSKESEDNDLGKESEGEDSLKKESEDDDSEEESEEDSSEKQSQDGSDKEIEE
                     NGVKKDVDQDVSDKEFPEDVEKESEENETDKSEFDEGSERVLDEEGSEREFEEDSDEK
                     EEEGDDDEEEVVYERVFDDDSDDIEEEEEADEKECEDADDKEEDNDIDEKLFDDSDEK
                     EDEEDTDGKKDDDASDKVFEDNSNEKLFDEEEGPNEKLFDDSDERGTVGNVKEDGSQS
                     TDSSFALSSSDDDDDEV"
     exon            442..622
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            623..670
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            671..825
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            826..989
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            990..1089
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            1090..1179
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            1180..1317
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     exon            1318..2855
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2820..2825
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /note="hexamer: AATAAA"
     regulatory      2827..2832
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /note="hexamer: ATTAAA"
     polyA_site      2845
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
     polyA_site      2855
                     /gene="Htatsf1"
                     /gene_synonym="1600023H17Rik; 2600017A12Rik;
                     2700077B20Rik; TAT-SF1"
                     /note="major polyA site"
ORIGIN      
        1 ctacgttgcc acccgcgcgg acaatggcga ctgcatcagc ctgaggggga cttcgctctc
       61 aactcgttgc ctgacgtggc ggggaggaag ctgtggcgcc tccggaaccg gccgcagcgg
      121 tgacagcgcg cctgcgcgct tccgcctcgc cctggcccca gcagcggcgg cggcgaggcc
      181 ctgcggagcc cgccagcgcc ctctcggcct cttcacttct ctgaccgcgg tgtccgggac
      241 tacgtgagaa ccatgagtgg caacaacttg agcgggaacg atgagtttga tgagcaattg
      301 cgaatgcaag aattgtatgg aggagacccc aaggaaggtg acacccagaa tgagccctct
      361 ggagaagccc attctttggg acaaccacca gatgacactc cttacgagtg ggaccttgat
      421 aagaaggctt ggttccctaa gatcaccgaa gatttcattg ctacgtatca ggctaactac
      481 ggcttttcta gtgatggtgc atccagctct actgcgaacg tccaggacgc caacactaag
      541 gctgtagaag aacctccaca aaaagaagtc ccggagaccc ctgactccaa aaggaagggg
      601 gaaaagagaa aggctgaatc tggatggttc catgttgaag aagacagaaa tacaaatgta
      661 tacgtgtcag gtctccctcc agacatcaca gtggatgaat ttattcagct catgtccaaa
      721 tttggcatta ttatgagaga tcctcagact gaagagttta aagttaaact gtacaaagat
      781 gatcaaggga atcttaaagg agatgggctt tgttgttatc tgaagaaaga atctgtggag
      841 cttgcattaa aacttttgga tgaagatgaa attagaggct acaaattgca tgtggaggtg
      901 gcaaagttcc agctcaaggg tgaatacgat gcctcaaaga agaagaagaa gtgcaaagat
      961 tataagaaga agctgtctct acaacagaag cagttggatt ggagacctga gagacgagct
     1021 ggaccaaacc ggctgcgcca tgagcgagtt gtcattctca aaaatatgtt tcaccccatg
     1081 gactttgagg atgacccatt ggtactgaat gagatcagag aagatctgcg agtagaatgt
     1141 tccaagtttg ggcagattcg gaagctcctt ctgtttgata gacacccaga tggtgtggcc
     1201 tctgtgtcct tcagagagcc agaggaggct gaccattgta ttcagactct ggatggaagg
     1261 tggtttggtg gccgacagat cactgctcaa gcctgggatg ggactacaga ttatcaggta
     1321 gaggagacct caagagaaag agaggagcgg ctgagaggct gggaggcatt cctcaatgct
     1381 cctgaggcca gcagaggcct ccggcggatg gattccatcg ctggttcaga aaggccaggg
     1441 ccttccagaa tgaggcattt ttcagagcac ccaagtatgt ctaatatgaa ggctcaggaa
     1501 gctacaactg gaatggcatt tgaagaaact atcgatgaaa ataagtttga aaaggcagaa
     1561 gaagggggag aatccgaagg agatgcttct gaaaaagatg ccaaagaagg tgggtctgat
     1621 ggggaccacc ctgagagaga gggtggagaa ggctgctcca agaaagagaa tgaagagggc
     1681 tgccctgaga gggcgcttga gcctgaggag ggtaatcctc aaaccgaggc tcaagagaat
     1741 ggccctgaaa gggaagctag gaagaaaagc aaaatggatt atgagaagaa tggcttttca
     1801 aaagagtctg aagacaatga ccttggcaag gagtctgaag gggaagacag cctcaagaaa
     1861 gagtcggaag atgatgattc agaggaggaa tctgaggaag acagctcaga aaagcaatct
     1921 caagatggct ctgacaaaga aatagaagaa aatggtgtta aaaaagatgt tgaccaggat
     1981 gtctctgaca aggagttccc agaagatgtt gagaaagagt cagaagaaaa tgagactgac
     2041 aaatcagaat ttgatgaagg ttctgaaaga gtgttagatg aggaaggctc ggagagagaa
     2101 tttgaggaag actcagatga aaaggaggaa gaaggtgatg atgatgaaga agaggtcgta
     2161 tatgaaaggg tttttgatga tgattctgat gacattgagg aggaagaaga agcagatgaa
     2221 aaggagtgtg aagatgctga tgacaaagag gaagacaatg atatagatga aaagctcttt
     2281 gatgactccg atgagaagga agatgaagaa gacacagatg gaaagaaaga tgatgatgcc
     2341 agtgacaagg tattcgaaga caattccaat gagaagttgt ttgatgagga agaaggtccc
     2401 aatgagaagt tgtttgatga ttctgatgag agagggactg tggggaatgt gaaggaagat
     2461 gggtctcagt ccacagacag cagctttgcc ctcagtagta gtgatgatga tgatgatgaa
     2521 gtgtaatctt ttccagttgc ttcttaggga gagccctgca tctccatttg cccatgcttc
     2581 agggtcaata gtagtgttac agcaacatgt gcatagtggt aggatgccat ctgactaatg
     2641 tctcgaaggg ttttgttctc acctgtacca gtggatttaa atatgtttat tggttcttca
     2701 gttcaaaact tcacagttac catgcaagta aactggatat ctgtcatttt gttggatttg
     2761 ttaaatgcat gcaaaagaat atttttaaag tattctaatt ggagtttgtg atattcagaa
     2821 ataaagatta aattggtaat atgcagaacc tgaaa
//
