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2024-03-29 18:55:56, GGRNA : RefSeq release 60 (20130726)

LOCUS       NM_019610               5028 bp    mRNA    linear   PRI 17-APR-2013
DEFINITION  Homo sapiens RNA binding motif protein, X-linked-like 1 (RBMXL1),
            transcript variant 2, mRNA.
ACCESSION   NM_019610
VERSION     NM_019610.5  GI:242247047
KEYWORDS    RefSeq.
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 5028)
  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   2  (bases 1 to 5028)
  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   3  (bases 1 to 5028)
  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 DC397531.1, BC012942.1,
            BF901720.1 and AL832785.1.
            On Jun 27, 2009 this sequence version replaced gi:242117969.
            
            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 (2) lacks an exon in the 5' UTR
            compared to variant 1. 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 :: AL832554.1, BC012942.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           ERS025081, ERS025084 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-341               DC397531.1         68-408
            342-2147            BC012942.1         1-1806
            2148-2172           BF901720.1         413-437
            2173-4018           BC012942.1         1832-3677
            4019-5028           AL832785.1         2960-3969
FEATURES             Location/Qualifiers
     source          1..5028
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p22.2"
     gene            1..5028
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RNA binding motif protein, X-linked-like 1"
                     /db_xref="GeneID:494115"
                     /db_xref="HGNC:25073"
                     /db_xref="HPRD:17417"
     exon            1..376
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /inference="alignment:Splign:1.39.8"
     exon            377..4987
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /inference="alignment:Splign:1.39.8"
     misc_feature    575..577
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="upstream in-frame stop codon"
     CDS             617..1789
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="heterogeneous nuclear ribonucleoprotein G-like 1"
                     /codon_start=1
                     /product="RNA binding motif protein, X-linked-like-1"
                     /protein_id="NP_062556.2"
                     /db_xref="GI:21361809"
                     /db_xref="CCDS:CCDS716.1"
                     /db_xref="GeneID:494115"
                     /db_xref="HGNC:25073"
                     /db_xref="HPRD:17417"
                     /translation="
MVEADRPGKLFIGGLNTETNEKALETVFGKYGRIVEVLLIKDRETNKSRGFAFVTFESPADAKDAARDMNGKSLDGKAIKVEQATKPSFERGRHGPPPPPRSRGPPRGFGAGRGGSGGTRGPPSRGGHMDDGGYSMNFNMSSSRGPLPVKRGPPPRSGGPSPKRSAPSGLVRSSSGMGGRAPLSRGRDSYGGPPRREPLPSRRDVYLSPRDDGYSTKDSYSSRDYPSSRDTRDYAPPPRDYTYRDYGHSSSRDDYPSRGYGDRDGYGRDRDYSDHPSGGSYRDSYESYGNSRSAPLTRGPPPSYGGSSRYDDYSSSRDGYGGSRDSYSSSRSDLYSSCDRVGRQERGLPPSVERGYPSSRDSYSSSSRGAPRGAGPGGSRSDRGGGRSRY
"
     misc_feature    641..862
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RRM (RNA recognition motif), also known as RBD (RNA
                     binding domain) or RNP (ribonucleoprotein domain), is a
                     highly abundant domain in eukaryotes found in proteins
                     involved in post-transcriptional gene expression processes
                     including mRNA and rRNA...; Region: RRM; cd00590"
                     /db_xref="CDD:100104"
     misc_feature    order(647..649,767..769,773..775)
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RNA/DNA binding site [nucleotide binding]; other
                     site"
                     /db_xref="CDD:100104"
     misc_feature    857..862
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RRM dimerization site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100104"
     misc_feature    878..880
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="Phosphoserine; propagated from UniProtKB/Swiss-Prot
                     (Q96E39.1); phosphorylation site"
     misc_feature    1097..1099
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="Phosphoserine; propagated from UniProtKB/Swiss-Prot
                     (Q96E39.1); phosphorylation site"
     misc_feature    1133..1267
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /note="RBM1CTR (NUC064) family; Region: RBM1CTR;
                     pfam08081"
                     /db_xref="CDD:149260"
     misc_feature    1232..1234
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1238..1240
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1430..1432
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1433..1435
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1445..1447
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1475..1477
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1478..1480
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     misc_feature    1487..1489
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="phosphorylation site"
     variation       3272
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:3209411"
     STS             3750..3834
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /standard_name="RH93455"
                     /db_xref="UniSTS:92375"
     STS             3791..3950
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /standard_name="A004S46"
                     /db_xref="UniSTS:70793"
     variation       3990
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /replace="a"
                     /replace="c"
                     /db_xref="dbSNP:1053196"
     STS             4722..4898
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
                     /standard_name="SHGC-75112"
                     /db_xref="UniSTS:69922"
     polyA_signal    4967..4972
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
     polyA_site      4987
                     /gene="RBMXL1"
                     /gene_synonym="RBM1"
ORIGIN      
gtggcccccaccccttccctcctccatttccatccattccgcgatcgcggcggaccccaccgtcatcgcgcgccgtgagtcacactccacagccaatccctggccacatccgggctcgcccccgccccgcccccttgttcccgcaagcccggaactgcccaaatcccgcccctcccctcccaaaaaaacacccctcatccagtctcttccagcctagagatcctggcctacccctccgccaaagcgcgcactgagtgcaaaccccagagtcaatccctgtcccggctccgccccccgcgtccgaatcccgcccagccgggccctcaagcccagtcgggactcgagcctagggaggcgaggttcccgcaccggataggaacattctgttgttttcctctgccatctagtggcaaaagaaagtaattttcctggttttttgaatggatagccataccttaaaaagcatccagattgcgcagtagtgctagcggcttcgcggttcagtcctcctaactgacagccgccactggtgctgagctgctaggaagcccctgtcggcgagcttgttggagcttgaacccactgtcacccctccgactcaccggcaaaaaaaaaaatggttgaagcagatcgcccaggaaagctcttcattggtgggcttaatacggaaacaaatgagaaagctcttgaaacagtatttggcaaatatggacgaatagtggaagtactcttgataaaagaccgtgaaaccaacaaatcaagaggatttgcttttgtcacctttgaaagcccagcagacgctaaggatgcagccagagacatgaatggaaagtcattagatggaaaagccatcaaggtggaacaagccaccaaaccatcatttgaaagaggtagacatggaccgcccccacctccaagaagtagaggtcctccaagaggttttggagctggaagaggaggaagtggaggaaccaggggacctccttcacgaggaggacacatggatgatggtggatattccatgaattttaacatgagttcttccaggggaccactcccagtaaaaagaggaccaccaccaagaagtgggggtccttctcctaagagatctgcaccttcaggactagttcgcagcagcagtggaatgggaggaagagctcctctatcacgtggaagagatagttatggaggtccacctcgaagggaaccgctcccctctcgtagagatgtttatttgtccccaagagatgatgggtattctactaaagacagctattcaagcagagattacccaagttctcgtgatacaagagattatgcaccaccaccacgagattatacttaccgtgattatggtcattccagttcacgtgatgactatccatcaagaggctatggcgatagagatggatatggtcgtgatcgtgactattcagatcatccaagtggaggttcctacagagattcatatgagagttatggtaactcacgtagtgctccacttacacgagggcccccgccatcttatggtggaagcagtcgctatgatgattatagcagctcacgtgatggatatggtggaagtcgagacagttactcaagcagccgaagtgatctctactcaagttgtgacagggttggcagacaagaaagagggcttcccccttctgtagaaagggggtacccttcttcacgtgattcctacagcagttcaagccgcggagcaccaagaggtgctggccctggaggaagccgatctgatagagggggaggcagaagcagatactagaaacaaacaaaactttggaccaaaatcccagttcaaagaaacaaaaaaaagagtggaaactattctatcataactacccaaggactactaaaaggaaaaattgtgttaccttttttaaattccctgttaagtcccttccgtaatttttatgttcttgtgaggaaaaaagtaaaacatgtttaattttatttgactttatgacattgcttttcaacaagcaaatgttaaatgtgttaagccttgtagtactagtgttgtaactttccaagtaaaggtgtccctaaagaccacttcctatctggtttttcccagtaaatgaggcaagcaattctaagatcttccacaaaacatctagccaactaaaatggagagatgaatcattctgcctatacaaacaagctagctattagagggtggttggagtatgctactcataagatttcagggtgttttctaactgaaatctcactgttctcagtatgcaaaacctgaaatcagatgcctatgtaaggaaagtgctattcacccagtaaacccaaaaaaagcaaatggataatgctggccattttgcctttctgacatttccttgggaatctgcaagaacctcccctttcccctcccacaataagaccatttaagtgtgtgctaaacaactacggaatactaaataaaaagtttggccaaaaccaaccatgaagctgcaaaggtgcttgctcttactctttcaaatttttgcaactctaatgtctcacttttaaaggaacagcttgattgcaaaggagaaaatagataagcaatgaatttatctccaacttcctaaaggcttatgacttctaaaaagtgaatctatcagcattccacatcagatttaaagcatcaaatgcctgtgaaacagcaaagatggttgaagattgtgctcattatgtttgtggagtgctgattgattcacagtagataacgctggcagtaagagaaatcaaatgctaagagttgttgaagcagaaggcggctgattgttggtaagtcagtgcagttgcataagcagtgctgtcagaattggtttggtgcaggcaatagattttgccttcaagggttcctgtggatctcaggaaggcatcagtgttgattaacactcataactagggagtgagtggtagttacttaagtaattgaccaaatggaaaaggggaagtaattaaggaaattggtaagtggaggtagtcaggaggttctcgtggtcctttacacagattttacagctttgggtttcattttgtttagctaaagtcatggggacaactcttcaatttagaacttaagatgaattataaaaatgatggatataagtggtagctctatctggtgaagtgtcttgtcagtaagtgaaacatttttttgtggtggcttatccacaaacagtttagttgtagaataaaacttatgagtgacatctggaaagtaacaaccatgctaagatggcaaacacactggaaacaattgggccacttggctttcttttgctgtattgttttataagcctgctttacctccccgtcttggaaacaagttttagtttattgctttggagactagagccaatagtgtaatgttctcaaaggaaacagacttgagttgttggattagaggaactaactcaacttctaattttttttgttgtaattatggcactgtcatgttttaacatttgcaactagggatagtaagtacaacatttttaactctcatttggcagactactactaatcacagaccacaagggtaatgaccaaatttatgtggttgttacacttccatagttgtcttagccgaatccttccatattcttatgattacttgggttaaagcttctgtgaggaccttttggctcttaagatatcctaaatatttaaaatatttagatatcctaaatataggatatagagtttgtaccaaatatgaatgaatattgttcaaagcaaggagtatgttaaaatgaccagacacctgtttgataaatagtttactgaactagcagacgtgtggaaaaagaatcagatcttgattcttctgggtttatactggttgtaaaacagaatgatattagaaaatgttttccttgtttaagtggtagttgaacatagaacttgggtattatagatcacttttcactttttggaatgttttgtattgaaacttaatacaactttaacatggcaaaaaaaaaaaaaatccaaaatctatgagataattttgttaaagttggcttgcttgggcgggtgcttggtccagagggagaaaagaaggcatgatttcagaatactctggcagctttttaaattcagctttatcaagttacagtaaactgtatctgtttagaattacaactcaatggttattttgacagatgtatatgccatgaagccactgtcaccatcaacatgcagaacacttccatcgcccccaaaagattcctcaagttcctttgcagtccatccctcacgctgctgatttgtctttgtcaccatatattagtttgctttgtggtggtgtttagtattttatataaatgggattgtgtagcatgtacttttttgtttatggtttctttcacacacaatgactttgaaattcaccaggttgcagtgtatcagtagcttattccttttattgctgagtagtgtcccattatgtgaatatgccattatttgtttttctactcacctgttgatggaccttgggattgtttccagtttggggctactgtgaataaaactgttaggaacatttgtgtacaagccactgtgtagacataggttttcctttctcttgggtaaatacctaccagtaaaatggttgggttgcatggcagatttatgtttaataaagtaactgccaaactgtttgttttccaaaggggctatacccttttatattcccaccagggttgtatagagttccaactgccaacactcagttttcagccattctgatgggaatctagtggtatctcattgtggttttattttcatttccccgggtgactaatgctggtaagcatcttttaaggtactttttggccagttgtatattttctgtgaagtggctgtcaaatcttttgcccacttttaattggattgtttgtcttattgagttgtaaaagttctttatatatactgtattaaagtcctttgtaagacaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
//

Annotations:

ANNOTATIONS from NCBI Entrez Gene (20130726):
            GeneID:494115 -> Molecular function: GO:0000166 [nucleotide binding] evidence: IEA
            GeneID:494115 -> Molecular function: GO:0003723 [RNA binding] evidence: IEA
            GeneID:494115 -> Biological process: GO:0006397 [mRNA processing] evidence: IEA
            GeneID:494115 -> Biological process: GO:0008380 [RNA splicing] evidence: IEA
            GeneID:494115 -> Cellular component: GO:0005634 [nucleus] evidence: IEA
            GeneID:494115 -> Cellular component: GO:0030529 [ribonucleoprotein complex] evidence: IEA

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