LOCUS       NM_203306               5230 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens small integral membrane protein 10 like 2A
            (SMIM10L2A), mRNA.
ACCESSION   NM_203306 NR_024359 XM_001127817 XM_001129116 XM_001721183
VERSION     NM_203306.3
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 5230)
  AUTHORS   Ji,B., Huang,Y., Gu,T., Zhang,L., Li,G. and Zhang,C.
  TITLE     Potential diagnostic and prognostic value of plasma long noncoding
            RNA LINC00086 and miR-214 expression in gastric cancer
  JOURNAL   Cancer Biomark 24 (2), 249-255 (2019)
   PUBMED   30689553
  REMARK    GeneRIF: Plasma long noncoding RNA LINC00086 expression is
            significantly lower in gastric cancer (GC) patients than in normal
            individuals. GC patients with low LINC00086 expression are likely
            to have larger tumors, lymphatic metastasis, larger TNM stage, and
            higher carcinoembryonic antigen and carbohydrate antigen 19-9
            levels. GC patients with low LINC00086 expression show lower
            survival rates.
REFERENCE   2  (bases 1 to 5230)
  AUTHORS   Guo,J., Ma,J., Zhao,G., Li,G., Fu,Y., Luo,Y. and Gui,R.
  TITLE     Long Noncoding RNA LINC0086 Functions as a Tumor Suppressor in
            Nasopharyngeal Carcinoma by Targeting miR-214
  JOURNAL   Oncol Res 25 (7), 1189-1197 (2017)
   PUBMED   28245169
  REMARK    GeneRIF: tumor-suppressive role of LINC0086 in NPC. Low expression
            of LINC0086 is associated with a poor prognosis of NPC patients.
            Upregulation of LINC0086 significantly inhibited NPC cancer cell
            growth and caused apoptosis in vitro and in vivo by targeting
            miR-214.
REFERENCE   3  (bases 1 to 5230)
  AUTHORS   Leveille,N., Melo,C.A., Rooijers,K., Diaz-Lagares,A., Melo,S.A.,
            Korkmaz,G., Lopes,R., Moqadam,F.A., Maia,A.R., Wijchers,P.J.,
            Geeven,G., den Boer,M.L., Kalluri,R., de Laat,W., Esteller,M. and
            Agami,R.
  TITLE     Genome-wide profiling of p53-regulated enhancer RNAs uncovers a
            subset of enhancers controlled by a lncRNA
  JOURNAL   Nat Commun 6, 6520 (2015)
   PUBMED   25813522
  REMARK    Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL450472.14.
            
            On Nov 22, 2018 this sequence version replaced NM_203306.2.
            
            Summary: This gene encodes a highly conserved small protein that
            contains a conserved motif (DUF4560) and may function as an
            integral membrane protein. This transcript was also shown to
            associate with enhancer chromatin and therefore may also function
            as an RNA to regulate enhancers. [provided by RefSeq, Jan 2017].
            
            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 :: BC030620.1, BM547891.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1968189
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000417443.3/ ENSP00000488643.1
            NMD candidate          :: translation inferred from conservation
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-787               AL450472.14        81397-82183
            788-5230            AL450472.14        83086-87528
FEATURES             Location/Qualifiers
     source          1..5230
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xq26.3"
     gene            1..5230
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="small integral membrane protein 10 like 2A"
                     /db_xref="GeneID:399668"
                     /db_xref="HGNC:HGNC:34499"
     exon            1..787
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /inference="alignment:Splign:2.1.0"
     CDS             189..425
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="long intergenic non-protein coding RNA 86; lncRNA
                     activator of enhancer domains; Small integral membrane
                     protein 10-like protein 2B"
                     /codon_start=1
                     /product="small integral membrane protein 10-like protein
                     2A"
                     /protein_id="NP_976051.1"
                     /db_xref="GeneID:399668"
                     /db_xref="HGNC:HGNC:34499"
                     /translation="MAASAALSAAAAAAALSGLAVRLSRSAAARGSYGAFCKGLTRTL
                     LTFFDLAWRLRMNFPYFYIVASVMLNVRLQVRIE"
     exon            788..5230
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2895..2900
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="hexamer: AATACA"
     polyA_site      2912
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="major polyA site"
     polyA_site      4815
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
     regulatory      4999..5004
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="hexamer: TATAAA"
     polyA_site      5035
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
     regulatory      5207..5212
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
                     /note="hexamer: ATTAAA"
     polyA_site      5230
                     /gene="SMIM10L2A"
                     /gene_synonym="LED; LINC00086; LINC00087; LINC0086;
                     NCRNA00086; NCRNA00087; SMIM10L2B"
ORIGIN      
        1 gtgcgggatc gtggaggtgg ggccgaggca gcggccgcct gagccccgct cggccttggg
       61 aacacggggg cggggcggcc gcggctctgg gcgacccgct gggtgcacta gtgctcgggt
      121 cccaccgccc tgaggctcgc gctcgagcgg gtcagtcggt cggcggggcc tgcgcggggc
      181 ccgggcccat ggcggcgtcg gcggctctgt ctgcagcggc ggctgcggcg gccctgtctg
      241 gcctggcggt gcggctgtcg cgctcagctg cggcccgagg ctcgtacggc gccttctgca
      301 aggggctcac gcgcacgctg ctcaccttct tcgacctggc ctggcggctg cgcatgaact
      361 tcccctactt ctacatcgtg gcctcggtga tgcttaacgt ccgcctgcag gtgcggatcg
      421 agtgagcgcc ggcggcggcg gcggcgaagg cccggctgaa ggggcgcccg tgtccccgcc
      481 cgcccccggc cgggtcgccg gcatgaagga aagctgggcc gcggcggggg gcggaggcgg
      541 ggcggctcgg acccctggac tctagaccta cgccgccagg gcacgacggc ccagccctgg
      601 ccccggctgc ggtctcagcc cgggggccct ggatcgcgca gaaacgcact gaatgggccc
      661 ctgccatcgg gctccagaaa ctacctgggc tcggccgacc tgttgcctca tattggccaa
      721 agagggggaa accagaagga gggaattctg ctgcggcgac ttgactttcc aggcccggag
      781 cagaaaggca ttggcatttg taggcggtga cccgcccctt ctctggcctt gccaagagtc
      841 acatccctgc ccaggggcac ctctggccct ggaacttgcc tgggcagagg cagcgtgaag
      901 ggcctgaaca agaggagaag aagggccttc ctagtagagg cacagcatgg acaaaggctc
      961 acaggggtgg gggtgcccag tgatcgagtc ctggcttggg aaggaaggtc tgagttccct
     1021 gggaactgaa atctgctagc agcactgtga gagaggtgta tttccccctc ctaatgacag
     1081 aggaaactga ggcttcaggg aggggtggat ttgcccttga catgcagata ggaggaggag
     1141 gaactgcgtg tgcccctggg cctgcaggcc cccacacccc tccccagtct tcttcaagac
     1201 ctggcatggt gggaggaggg agggggaagt ggagagggga gcatagggct cctggggcac
     1261 caagggagag aggggcccag gggtagggaa tctaggaatg tcgctttcct tggagcagta
     1321 cggaaagtca cagggaagat caggaggacg gacagctgag atgggagaca ggagagatga
     1381 gccccaggac ccctggggag ccaagctgtc ccccacatcc tagcctctca ccccacctgg
     1441 agcttcacca agggctcctc agcagtgaag tggcacaagc ctcccagttt ggtgggcaag
     1501 tgggggtgat cttggtgttg tggctcctgg agacacgaca taaccaggag ggtgaaggga
     1561 taaacctggg gtgggctggg gctgagaccc atggcatgac cccaattctc tctcctcaag
     1621 ctcgaccccc catccccagg atcacacagg agaatctcat cctcacggct tggattgctc
     1681 ctgggggccc cctggtgtgc tgctaactgg tgtacaatgc tcaggagcag cccagagggg
     1741 agccgggaag ggaccctcgc ccttaccatc tatccccatt tccgcatctc ttgcactggt
     1801 accccgggcg ccacgttctc agttcctggg actgaaaact gcagcagtct ggccagctcc
     1861 agggacagag tggcccagcc acctactatg taccctcctc agctgcccac tggactcagg
     1921 tcctgaatga agctgtccgc ctgcctcatg ccagaagcgg ctggacagtg gctgcctcat
     1981 gacccttgca gtctcccaca tccagggcct gatgacatgc ccccttgtcc caagtttctt
     2041 gggaacccct gaccctgctg gcccctctca tccaccccaa ccctatccac cctggaccac
     2101 ctctgggggt ctgtcagcct gctggtcccc ccaacagatc tttgggggca gcctctatgg
     2161 gacaagagtg acacagggct ggagaagagg agtgaggagc ctccttgtgt ctgatgcaca
     2221 gatgtggccc tttcaaaccc tggtgtcacc ctctgggtga ctggatcccc agctccagcc
     2281 tcttcctggg ccagccagga aggctggagg aaagctcttt gctgagtgca tgcatgggag
     2341 tgtggggggt gactgagccc tccccatgca aggggcttgg cctgggaccc tggaagctgt
     2401 ttccctactg ggataaagtt gcgtcagccg caggggtctc tgccctcaaa gaccccccac
     2461 tgcagggagc cccaccccat aagagggtca cggaagtcca tgtccgccca cccccagtgg
     2521 cttctggtgt ggccgtattg gcctagaggg gctgactggg gagggtcagg gccaagccct
     2581 cagcatctgc tcctgtccct gctttttcac ccctgctgcc tgaagtggta gccccgcctg
     2641 ctgcttctcc acctcccctc cccacctctt ctctcccaga tggggccctt gctgcgtgac
     2701 ggggtctcca tgcgctttat ttatttgcag tctgttttct aggcggtgga gctagacact
     2761 gaccggaatg acatactttt ctgtgtgtga ttcactgtgt actggtcagc acaggctggc
     2821 cagagagctg ttcttgtttc tggtgttgtc acgtcttctt gttttctcta agtttaaaaa
     2881 aaagtccttg gtttaataca ctaaaatccc aactggaggc ctcccgtgtc tggtgggggt
     2941 gatgcagtgg ccccgggtgg agaggcccca tggtgaggtc accagctccc atggccagga
     3001 gttggcaggg agaagcctct gagggctagg gctgggggag gctgtggcag ggaccgtgtt
     3061 tcctgttcag aggctgtgct gagaaccgac ttgacctgga ccactgcccc atgagaagca
     3121 ggcagcatcc tagcctggcc ccgagaggta gctgcttgtt ctgttgacaa cctttgttca
     3181 acgacccaaa acataagtcc ctttcctttt tagagtctgg cgatcaaaag tgtcttaagt
     3241 cagtagaatc ctgagggtgg actagggtga agtgaactga aacagactcg acacaggtca
     3301 ttttgtgtag cactgagact cctctccctg cctgaggcca cctcccactg cctccctacc
     3361 agcaaggtta ctgcagaatc ttggagaaga taaaggacct ggccctggaa gcctgcttcc
     3421 ctttcccaac cttggaagca aattctgtcc catcagagcc cccctcccta gtggctccca
     3481 ccagagacct ccctagtggc tgctgtaagg gttggcaagc aggcaaaagg cgggggaggg
     3541 agggcagagg gtagtgttag aggaagcccc atagggcccc tgggtggggg tggggaggca
     3601 tcctgaggac acagggctat gctcagactt aggagtgaag actgggttta ggggccctgg
     3661 gggcactcct gttgccaagg gctacccagg ggtcagagca tcctgacaag gaggacccgt
     3721 ccaaacgcac tggtgctaat gccctatggc atctgccacc acaggagaaa tggaccccag
     3781 tccttgatct tccctcccct ttgtctagat ggtcctcttt atccccactc cagggatcac
     3841 atgacttggc aaagcaagat gggaaatgat cctcccagag cctggctcca aggcttcttg
     3901 aagagggagg atcacccctc ccatccctgc tacagaggaa aaggcaggaa ggccggttct
     3961 gctccgatgg gactccagga gaccaaagcc ctgagccctg agcccagctc ttccacttac
     4021 tactgtgtgg tgccaggcaa gctgtgcaca acctggagtt tttagtaagg ttccgttggg
     4081 atgcttgtaa gcagtgaata cgatgatgtc tgttcattgt ttgtcatcag gtctcacctg
     4141 gagcagcctt gttactgtgg ggaaaaggaa ccaagtgaag ggaatcggcc tctgatgaga
     4201 gcctgccatg tgccaggcac catactaggt gctttgcatt cctaatctca tcattatcac
     4261 acaaccacct aaccattatc cctgttttac agagaaacca aagacaggaa ccaagtctga
     4321 aacagagccc caagaagaag ctcttttcct gagctaccag tgccccttgg agaggcaggg
     4381 aattgggctg gaagaatggt ggaatggaat agcaaagatg gaagatgacc ctgtcctttc
     4441 tgggtgaggt ccagaagaaa tccagggctt ggatgagggg tagacctgag agccttctcc
     4501 aaatggaact ccccagtggg agcagctgtg gccaccctga gatgggtcta cctgtcttcc
     4561 ttccattcca cctccagaga ttgattggga cctaagagac tgagtcagga gagggcaaga
     4621 aagcagctaa gtgggaagtt tcaggggcac tagagcaaat acattgagaa atgggaaata
     4681 caaacagcat gcaaaatcac atcctactcc tacccacccc actcccaagg gaaattgctg
     4741 ggttttggac gaattttcac tttgtgtgca ccttttatgt atgtaaaact acaaacatac
     4801 tactttgaaa tctgattccg ctatttcatg tttgtcttac catgttatta tgtattttcc
     4861 tacatccaaa gctacctagt atctcttttg tatgaaggtt tcatcatgta tcccccagtg
     4921 ccctttggtt gtttttcttt gttgtcattt attttggtgg gggttggttt gctttttgtt
     4981 gttgtttttc cttgttttta taaatgatac agtgacagat gccgttgtgg ataaatgctg
     5041 tggcatagtc atcaattcct tgatatatat tcctagaaag tgcaccaaag ggtatgcatg
     5101 gcttagggct tttgatactc tccagagttg ggataccaag tcacactact cactggagtc
     5161 aggatgagag ttttttgaga caatggtggc aattctgatt caatagatta aaaaatttat
     5221 tactaccttt
//
