LOCUS       NM_001162536            4756 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens RBMX like 1 (RBMXL1), transcript variant 1, mRNA.
ACCESSION   NM_001162536
VERSION     NM_001162536.3
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 4756)
  AUTHORS   Prieto,C., Nguyen,D.T.T., Liu,Z., Wheat,J., Perez,A., Gourkanti,S.,
            Chou,T., Barin,E., Velleca,A., Rohwetter,T., Chow,A., Taggart,J.,
            Savino,A.M., Hoskova,K., Dhodapkar,M., Schurer,A., Barlowe,T.S.,
            Vu,L.P., Leslie,C., Steidl,U., Rabadan,R. and Kharas,M.G.
  TITLE     Transcriptional control of CBX5 by the RNA binding proteins RBMX
            and RBMXL1 maintains chromatin state in myeloid leukemia
  JOURNAL   Nat Cancer 2, 741-757 (2021)
   PUBMED   34458856
  REMARK    GeneRIF: Transcriptional control of CBX5 by the RNA binding
            proteins RBMX and RBMXL1 maintains chromatin state in myeloid
            leukemia.
REFERENCE   2  (bases 1 to 4756)
  AUTHORS   Martins-de-Souza,D., Gattaz,W.F., Schmitt,A., Rewerts,C.,
            Maccarrone,G., Dias-Neto,E. and Turck,C.W.
  TITLE     Prefrontal cortex shotgun proteome analysis reveals altered calcium
            homeostasis and immune system imbalance in schizophrenia
  JOURNAL   Eur Arch Psychiatry Clin Neurosci 259 (3), 151-163 (2009)
   PUBMED   19165527
REFERENCE   3  (bases 1 to 4756)
  AUTHORS   Marques,A.C., Dupanloup,I., Vinckenbosch,N., Reymond,A. and
            Kaessmann,H.
  TITLE     Emergence of young human genes after a burst of retroposition in
            primates
  JOURNAL   PLoS Biol 3 (11), e357 (2005)
   PUBMED   16201836
REFERENCE   4  (bases 1 to 4756)
  AUTHORS   Emerson,J.J., Kaessmann,H., Betran,E. and Long,M.
  TITLE     Extensive gene traffic on the mammalian X chromosome
  JOURNAL   Science 303 (5657), 537-540 (2004)
   PUBMED   14739461
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA216732.1, BC012942.1,
            BF901720.1 and AL832785.1.
            
            On Nov 23, 2018 this sequence version replaced NM_001162536.2.
            
            Summary: This gene represents a retrogene of RNA binding motif
            protein, X-linked (RBMX), which is located on chromosome X. While
            all introns in the coding sequence have been processed out compared
            to the RBMX locus, the ORF is intact and there is specific evidence
            for transcription at this location. The preservation of the ORF by
            purifying selection in all Old World monkeys carrying it suggests
            that this locus is likely to be functional, possibly during male
            meiosis when X chromosomal genes are silenced or during haploid
            stages of spermatogenesis. This gene shares 5' exon structure with
            the cysteine conjugate-beta lyase 2 locus on chromosome 1, but the
            coding sequences are non-overlapping. Alternative splicing results
            in two transcript variants. [provided by RefSeq, Jun 2009].
            
            Transcript Variant: This variant (1) represents the longer
            transcript. Both variants 1 and 2 encode the same protein.
            
            CCDS Note: This CCDS represents a retrogene of RBMX (RNA binding
            motif protein, X-linked), which is located on chromosome X. While
            all introns in the coding sequence have been processed out compared
            to the RBMX locus, the ORF is intact and there is specific evidence
            for transcription at this location. Studies in PMID:16201836
            indicate that this locus is likely to be functional because the ORF
            has been preserved by purifying selection in all six Old World
            primates carrying this retrogene. Given that X chromosomal genes in
            mammals can generate a statistically significant excess of
            autosomal retrogenes relative to genes on other chromosomes
            (PMID:14739461), it is possible that this retrogene may be
            functional during male meiosis when X chromosomal genes are
            silenced or during haploid stages of spermatogenesis
            (PMID:16201836). In addition, it should be noted that this
            retrogene shares its first non-coding exon with the cysteine
            conjugate-beta lyase 2 (CCBL2) locus on chromosome 1, but the
            coding sequences are non-overlapping.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660805.347574.1,
                                           SRR1803617.221530.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000652648.1/ ENSP00000498248.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-362               DA216732.1         174-535
            363-1916            BC012942.1         253-1806
            1917-1941           BF901720.1         413-437
            1942-3787           BC012942.1         1832-3677
            3788-4756           AL832785.1         2960-3928
FEATURES             Location/Qualifiers
     source          1..4756
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p22.2"
     gene            1..4756
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RBMX like 1"
                     /db_xref="GeneID:494115"
                     /db_xref="HGNC:HGNC:25073"
     exon            1..45
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /inference="alignment:Splign:2.1.0"
     exon            46..145
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /inference="alignment:Splign:2.1.0"
     exon            146..4756
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /inference="alignment:Splign:2.1.0"
     CDS             386..1558
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="heterogeneous nuclear ribonucleoprotein G-like 1;
                     RNA binding motif protein, X-linked like 1"
                     /codon_start=1
                     /product="RNA binding motif protein, X-linked-like-1"
                     /protein_id="NP_001156008.1"
                     /db_xref="CCDS:CCDS716.1"
                     /db_xref="GeneID:494115"
                     /db_xref="HGNC:HGNC:25073"
                     /translation="MVEADRPGKLFIGGLNTETNEKALETVFGKYGRIVEVLLIKDRE
                     TNKSRGFAFVTFESPADAKDAARDMNGKSLDGKAIKVEQATKPSFERGRHGPPPPPRS
                     RGPPRGFGAGRGGSGGTRGPPSRGGHMDDGGYSMNFNMSSSRGPLPVKRGPPPRSGGP
                     SPKRSAPSGLVRSSSGMGGRAPLSRGRDSYGGPPRREPLPSRRDVYLSPRDDGYSTKD
                     SYSSRDYPSSRDTRDYAPPPRDYTYRDYGHSSSRDDYPSRGYGDRDGYGRDRDYSDHP
                     SGGSYRDSYESYGNSRSAPLTRGPPPSYGGSSRYDDYSSSRDGYGGSRDSYSSSRSDL
                     YSSCDRVGRQERGLPPSVERGYPSSRDSYSSSSRGAPRGAGPGGSRSDRGGGRSRY"
     regulatory      4736..4741
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="hexamer: ATTAAA"
     polyA_site      4756
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="major polyA site"
ORIGIN      
        1 agtcgggact cgagcctagg gaggcgaggt tcccgcaccg gatagcatgt ttttggccca
       61 gaggagcctc tgctctctta gcggtagagc aaaattcctg aagacaattt cttcttccaa
      121 aatcctcgga ttctctactt ctgctgaaca ttctgttgtt ttcctctgcc atctagtggc
      181 aaaagaaagt aattttcctg gttttttgaa tggatagcca taccttaaaa agcatccaga
      241 ttgcgcagta gtgctagcgg cttcgcggtt cagtcctcct aactgacagc cgccactggt
      301 gctgagctgc taggaagccc ctgtcggcga gcttgttgga gcttgaaccc actgtcaccc
      361 ctccgactca ccggcaaaaa aaaaaatggt tgaagcagat cgcccaggaa agctcttcat
      421 tggtgggctt aatacggaaa caaatgagaa agctcttgaa acagtatttg gcaaatatgg
      481 acgaatagtg gaagtactct tgataaaaga ccgtgaaacc aacaaatcaa gaggatttgc
      541 ttttgtcacc tttgaaagcc cagcagacgc taaggatgca gccagagaca tgaatggaaa
      601 gtcattagat ggaaaagcca tcaaggtgga acaagccacc aaaccatcat ttgaaagagg
      661 tagacatgga ccgcccccac ctccaagaag tagaggtcct ccaagaggtt ttggagctgg
      721 aagaggagga agtggaggaa ccaggggacc tccttcacga ggaggacaca tggatgatgg
      781 tggatattcc atgaatttta acatgagttc ttccagggga ccactcccag taaaaagagg
      841 accaccacca agaagtgggg gtccttctcc taagagatct gcaccttcag gactagttcg
      901 cagcagcagt ggaatgggag gaagagctcc tctatcacgt ggaagagata gttatggagg
      961 tccacctcga agggaaccgc tcccctctcg tagagatgtt tatttgtccc caagagatga
     1021 tgggtattct actaaagaca gctattcaag cagagattac ccaagttctc gtgatacaag
     1081 agattatgca ccaccaccac gagattatac ttaccgtgat tatggtcatt ccagttcacg
     1141 tgatgactat ccatcaagag gctatggcga tagagatgga tatggtcgtg atcgtgacta
     1201 ttcagatcat ccaagtggag gttcctacag agattcatat gagagttatg gtaactcacg
     1261 tagtgctcca cttacacgag ggcccccgcc atcttatggt ggaagcagtc gctatgatga
     1321 ttatagcagc tcacgtgatg gatatggtgg aagtcgagac agttactcaa gcagccgaag
     1381 tgatctctac tcaagttgtg acagggttgg cagacaagaa agagggcttc ccccttctgt
     1441 agaaaggggg tacccttctt cacgtgattc ctacagcagt tcaagccgcg gagcaccaag
     1501 aggtgctggc cctggaggaa gccgatctga tagaggggga ggcagaagca gatactagaa
     1561 acaaacaaaa ctttggacca aaatcccagt tcaaagaaac aaaaaaaaga gtggaaacta
     1621 ttctatcata actacccaag gactactaaa aggaaaaatt gtgttacctt ttttaaattc
     1681 cctgttaagt cccttccgta atttttatgt tcttgtgagg aaaaaagtaa aacatgttta
     1741 attttatttg actttatgac attgcttttc aacaagcaaa tgttaaatgt gttaagcctt
     1801 gtagtactag tgttgtaact ttccaagtaa aggtgtccct aaagaccact tcctatctgg
     1861 tttttcccag taaatgaggc aagcaattct aagatcttcc acaaaacatc tagccaacta
     1921 aaatggagag atgaatcatt ctgcctatac aaacaagcta gctattagag ggtggttgga
     1981 gtatgctact cataagattt cagggtgttt tctaactgaa atctcactgt tctcagtatg
     2041 caaaacctga aatcagatgc ctatgtaagg aaagtgctat tcacccagta aacccaaaaa
     2101 aagcaaatgg ataatgctgg ccattttgcc tttctgacat ttccttggga atctgcaaga
     2161 acctcccctt tcccctccca caataagacc atttaagtgt gtgctaaaca actacggaat
     2221 actaaataaa aagtttggcc aaaaccaacc atgaagctgc aaaggtgctt gctcttactc
     2281 tttcaaattt ttgcaactct aatgtctcac ttttaaagga acagcttgat tgcaaaggag
     2341 aaaatagata agcaatgaat ttatctccaa cttcctaaag gcttatgact tctaaaaagt
     2401 gaatctatca gcattccaca tcagatttaa agcatcaaat gcctgtgaaa cagcaaagat
     2461 ggttgaagat tgtgctcatt atgtttgtgg agtgctgatt gattcacagt agataacgct
     2521 ggcagtaaga gaaatcaaat gctaagagtt gttgaagcag aaggcggctg attgttggta
     2581 agtcagtgca gttgcataag cagtgctgtc agaattggtt tggtgcaggc aatagatttt
     2641 gccttcaagg gttcctgtgg atctcaggaa ggcatcagtg ttgattaaca ctcataacta
     2701 gggagtgagt ggtagttact taagtaattg accaaatgga aaaggggaag taattaagga
     2761 aattggtaag tggaggtagt caggaggttc tcgtggtcct ttacacagat tttacagctt
     2821 tgggtttcat tttgtttagc taaagtcatg gggacaactc ttcaatttag aacttaagat
     2881 gaattataaa aatgatggat ataagtggta gctctatctg gtgaagtgtc ttgtcagtaa
     2941 gtgaaacatt tttttgtggt ggcttatcca caaacagttt agttgtagaa taaaacttat
     3001 gagtgacatc tggaaagtaa caaccatgct aagatggcaa acacactgga aacaattggg
     3061 ccacttggct ttcttttgct gtattgtttt ataagcctgc tttacctccc cgtcttggaa
     3121 acaagtttta gtttattgct ttggagacta gagccaatag tgtaatgttc tcaaaggaaa
     3181 cagacttgag ttgttggatt agaggaacta actcaacttc taattttttt tgttgtaatt
     3241 atggcactgt catgttttaa catttgcaac tagggatagt aagtacaaca tttttaactc
     3301 tcatttggca gactactact aatcacagac cacaagggta atgaccaaat ttatgtggtt
     3361 gttacacttc catagttgtc ttagccgaat ccttccatat tcttatgatt acttgggtta
     3421 aagcttctgt gaggaccttt tggctcttaa gatatcctaa atatttaaaa tatttagata
     3481 tcctaaatat aggatataga gtttgtacca aatatgaatg aatattgttc aaagcaagga
     3541 gtatgttaaa atgaccagac acctgtttga taaatagttt actgaactag cagacgtgtg
     3601 gaaaaagaat cagatcttga ttcttctggg tttatactgg ttgtaaaaca gaatgatatt
     3661 agaaaatgtt ttccttgttt aagtggtagt tgaacataga acttgggtat tatagatcac
     3721 ttttcacttt ttggaatgtt ttgtattgaa acttaataca actttaacat ggcaaaaaaa
     3781 aaaaaaatcc aaaatctatg agataatttt gttaaagttg gcttgcttgg gcgggtgctt
     3841 ggtccagagg gagaaaagaa ggcatgattt cagaatactc tggcagcttt ttaaattcag
     3901 ctttatcaag ttacagtaaa ctgtatctgt ttagaattac aactcaatgg ttattttgac
     3961 agatgtatat gccatgaagc cactgtcacc atcaacatgc agaacacttc catcgccccc
     4021 aaaagattcc tcaagttcct ttgcagtcca tccctcacgc tgctgatttg tctttgtcac
     4081 catatattag tttgctttgt ggtggtgttt agtattttat ataaatggga ttgtgtagca
     4141 tgtacttttt tgtttatggt ttctttcaca cacaatgact ttgaaattca ccaggttgca
     4201 gtgtatcagt agcttattcc ttttattgct gagtagtgtc ccattatgtg aatatgccat
     4261 tatttgtttt tctactcacc tgttgatgga ccttgggatt gtttccagtt tggggctact
     4321 gtgaataaaa ctgttaggaa catttgtgta caagccactg tgtagacata ggttttcctt
     4381 tctcttgggt aaatacctac cagtaaaatg gttgggttgc atggcagatt tatgtttaat
     4441 aaagtaactg ccaaactgtt tgttttccaa aggggctata cccttttata ttcccaccag
     4501 ggttgtatag agttccaact gccaacactc agttttcagc cattctgatg ggaatctagt
     4561 ggtatctcat tgtggtttta ttttcatttc cccgggtgac taatgctggt aagcatcttt
     4621 taaggtactt tttggccagt tgtatatttt ctgtgaagtg gctgtcaaat cttttgccca
     4681 cttttaattg gattgtttgt cttattgagt tgtaaaagtt ctttatatat actgtattaa
     4741 agtcctttgt aagaca
//
