LOCUS       NM_001351298            2428 bp    mRNA    linear   PRI 02-APR-2024
DEFINITION  Homo sapiens ATP binding cassette subfamily F member 3 (ABCF3),
            transcript variant 2, mRNA.
ACCESSION   NM_001351298
VERSION     NM_001351298.2
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 2428)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2428)
  AUTHORS   Yang,X., Coulombe-Huntington,J., Kang,S., Sheynkman,G.M., Hao,T.,
            Richardson,A., Sun,S., Yang,F., Shen,Y.A., Murray,R.R., Spirohn,K.,
            Begg,B.E., Duran-Frigola,M., MacWilliams,A., Pevzner,S.J.,
            Zhong,Q., Wanamaker,S.A., Tam,S., Ghamsari,L., Sahni,N., Yi,S.,
            Rodriguez,M.D., Balcha,D., Tan,G., Costanzo,M., Andrews,B.,
            Boone,C., Zhou,X.J., Salehi-Ashtiani,K., Charloteaux,B., Chen,A.A.,
            Calderwood,M.A., Aloy,P., Roth,F.P., Hill,D.E., Iakoucheva,L.M.,
            Xia,Y. and Vidal,M.
  TITLE     Widespread Expansion of Protein Interaction Capabilities by
            Alternative Splicing
  JOURNAL   Cell 164 (4), 805-817 (2016)
   PUBMED   26871637
REFERENCE   3  (bases 1 to 2428)
  AUTHORS   Guo,Z., Neilson,L.J., Zhong,H., Murray,P.S., Zanivan,S. and
            Zaidel-Bar,R.
  TITLE     E-cadherin interactome complexity and robustness resolved by
            quantitative proteomics
  JOURNAL   Sci Signal 7 (354), rs7 (2014)
   PUBMED   25468996
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2428)
  AUTHORS   Zhou,J., Lin,Y., Shi,H., Huo,K. and Li,Y.
  TITLE     hABCF3, a TPD52L2 interacting partner, enhances the proliferation
            of human liver cancer cell lines in vitro
  JOURNAL   Mol Biol Rep 40 (10), 5759-5767 (2013)
   PUBMED   24052230
  REMARK    GeneRIF: hABCF3 positively regulates cell proliferation, at least
            partially through the interaction with a tumor protein D52 protein
            family member: TPD52L2.
REFERENCE   5  (bases 1 to 2428)
  AUTHORS   Ripke,S., Wray,N.R., Lewis,C.M., Hamilton,S.P., Weissman,M.M.,
            Breen,G., Byrne,E.M., Blackwood,D.H., Boomsma,D.I., Cichon,S.,
            Heath,A.C., Holsboer,F., Lucae,S., Madden,P.A., Martin,N.G.,
            McGuffin,P., Muglia,P., Noethen,M.M., Penninx,B.P., Pergadia,M.L.,
            Potash,J.B., Rietschel,M., Lin,D., Muller-Myhsok,B., Shi,J.,
            Steinberg,S., Grabe,H.J., Lichtenstein,P., Magnusson,P.,
            Perlis,R.H., Preisig,M., Smoller,J.W., Stefansson,K., Uher,R.,
            Kutalik,Z., Tansey,K.E., Teumer,A., Viktorin,A., Barnes,M.R.,
            Bettecken,T., Binder,E.B., Breuer,R., Castro,V.M., Churchill,S.E.,
            Coryell,W.H., Craddock,N., Craig,I.W., Czamara,D., De Geus,E.J.,
            Degenhardt,F., Farmer,A.E., Fava,M., Frank,J., Gainer,V.S.,
            Gallagher,P.J., Gordon,S.D., Goryachev,S., Gross,M., Guipponi,M.,
            Henders,A.K., Herms,S., Hickie,I.B., Hoefels,S., Hoogendijk,W.,
            Hottenga,J.J., Iosifescu,D.V., Ising,M., Jones,I., Jones,L.,
            Jung-Ying,T., Knowles,J.A., Kohane,I.S., Kohli,M.A., Korszun,A.,
            Landen,M., Lawson,W.B., Lewis,G., Macintyre,D., Maier,W.,
            Mattheisen,M., McGrath,P.J., McIntosh,A., McLean,A.,
            Middeldorp,C.M., Middleton,L., Montgomery,G.M., Murphy,S.N.,
            Nauck,M., Nolen,W.A., Nyholt,D.R., O'Donovan,M., Oskarsson,H.,
            Pedersen,N., Scheftner,W.A., Schulz,A., Schulze,T.G., Shyn,S.I.,
            Sigurdsson,E., Slager,S.L., Smit,J.H., Stefansson,H., Steffens,M.,
            Thorgeirsson,T., Tozzi,F., Treutlein,J., Uhr,M., van den Oord,E.J.,
            Van Grootheest,G., Volzke,H., Weilburg,J.B., Willemsen,G.,
            Zitman,F.G., Neale,B., Daly,M., Levinson,D.F. and Sullivan,P.F.
  CONSRTM   Major Depressive Disorder Working Group of the Psychiatric GWAS
            Consortium
  TITLE     A mega-analysis of genome-wide association studies for major
            depressive disorder
  JOURNAL   Mol Psychiatry 18 (4), 497-511 (2013)
   PUBMED   22472876
REFERENCE   6  (bases 1 to 2428)
  AUTHORS   Yu,H., Tardivo,L., Tam,S., Weiner,E., Gebreab,F., Fan,C.,
            Svrzikapa,N., Hirozane-Kishikawa,T., Rietman,E., Yang,X.,
            Sahalie,J., Salehi-Ashtiani,K., Hao,T., Cusick,M.E., Hill,D.E.,
            Roth,F.P., Braun,P. and Vidal,M.
  TITLE     Next-generation sequencing to generate interactome datasets
  JOURNAL   Nat Methods 8 (6), 478-480 (2011)
   PUBMED   21516116
REFERENCE   7  (bases 1 to 2428)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   8  (bases 1 to 2428)
  AUTHORS   Dean,M., Rzhetsky,A. and Allikmets,R.
  TITLE     The human ATP-binding cassette (ABC) transporter superfamily
  JOURNAL   Genome Res 11 (7), 1156-1166 (2001)
   PUBMED   11435397
  REMARK    Review article
REFERENCE   9  (bases 1 to 2428)
  AUTHORS   Allikmets,R., Gerrard,B., Hutchinson,A. and Dean,M.
  TITLE     Characterization of the human ABC superfamily: isolation and
            mapping of 21 new genes using the expressed sequence tags database
  JOURNAL   Hum Mol Genet 5 (10), 1649-1655 (1996)
   PUBMED   8894702
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC131235.4.
            
            On Feb 3, 2021 this sequence version replaced NM_001351298.1.
            
            Summary: This gene encodes a member of the ATP-binding cassette
            (ABC) transporter superfamily. ATP-binding cassette proteins
            transport various molecules across extra- and intracellular
            membranes. The protein encoded by this gene displays antiviral
            effect against flaviviruses. Alternatively spliced transcript
            variants encoding different isoforms have been found for this gene.
            [provided by RefSeq, May 2017].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the 5' coding region, compared to variant 1. This
            results in a shorter protein (isoform 2), compared to isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK092415.1, SRR1803614.128561.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2145893, SAMEA2148874
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-82                AC131235.4         25527-25608         c
            83-212              AC131235.4         25171-25300         c
            213-292             AC131235.4         24932-25011         c
            293-339             AC131235.4         24364-24410         c
            340-437             AC131235.4         24046-24143         c
            438-560             AC131235.4         23824-23946         c
            561-827             AC131235.4         23400-23666         c
            828-908             AC131235.4         22966-23046         c
            909-968             AC131235.4         22819-22878         c
            969-1025            AC131235.4         22663-22719         c
            1026-1048           AC131235.4         22530-22552         c
            1049-1104           AC131235.4         22364-22419         c
            1105-1305           AC131235.4         22050-22250         c
            1306-1382           AC131235.4         21876-21952         c
            1383-1427           AC131235.4         20764-20808         c
            1428-1560           AC131235.4         20552-20684         c
            1561-1649           AC131235.4         19118-19206         c
            1650-1741           AC131235.4         18911-19002         c
            1742-1874           AC131235.4         18573-18705         c
            1875-1962           AC131235.4         18355-18442         c
            1963-2428           AC131235.4         17802-18267         c
FEATURES             Location/Qualifiers
     source          1..2428
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q27.1"
     gene            1..2428
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /note="ATP binding cassette subfamily F member 3"
                     /db_xref="GeneID:55324"
                     /db_xref="HGNC:HGNC:72"
                     /db_xref="MIM:618967"
     exon            1..82
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     CDS             10..2121
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /note="isoform 2 is encoded by transcript variant 2;
                     ATP-binding cassette sub-family F member 3; ATP-binding
                     cassette, sub-family F (GCN20), member 3"
                     /codon_start=1
                     /product="ATP-binding cassette sub-family F member 3
                     isoform 2"
                     /protein_id="NP_001338227.1"
                     /db_xref="CCDS:CCDS87173.1"
                     /db_xref="GeneID:55324"
                     /db_xref="HGNC:HGNC:72"
                     /db_xref="MIM:618967"
                     /translation="MATCAEILRSEFPEIDGQVFDYVTGVLHSGSADFESVDDLVEAV
                     GELLQEVSGDSKDDAGIRAVCQRMAEPQSQGNSQVLLDAPIQLSKITENYDCGTKLPG
                     LLKREQSSTVNAKKLEKAEARLKAKQEKRSEKDTLKTSNPLVLEEASASQAGSRKESR
                     LESSGKNKSYDVRIENFDVSFGDRVLLAGADVNLAWGRRYGLVGRNGLGKTTLLKMLA
                     TRSLRVPAHISLLHVEQEVAGDDTPALQSVLESDSVREDLLRRERELTAQIAAGRAEG
                     SEAAELAEIYAKLEEIEADKAPARASVILAGLGFTPKMQQQPTREFSGGWRMRLALAR
                     ALFARPDLLLLDEPTNMLDVRAILWLENYLQTWPSTILVVSHDRNFLNAIATDIIHLH
                     SQRLDGYRGDFETFIKSKQERLLNQQREYEAQQQYRQHIQVFIDRFRYNANRASQVQS
                     KLKMLEKLPELKPVDKESEVVMKFPDGFEKFSPPILQLDEVDFYYDPKHVIFSRLSVS
                     ADLESRICVVGENGAGKSTMLKLLLGDLAPVRGIRHAHRNLKIGYFSQHHVEQLDLNV
                     SAVELLARKFPGRPEEEYRHQLGRYGISGELAMRPLASLSGGQKSRVAFAQMTMPCPN
                     FYILDEPTNHLDMETIEALGRALNNFRGGVILVSHDERFIRLVCRELWVCEGGGVTRV
                     EGGFDQYRALLQEQFRREGFL"
     exon            83..212
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            213..292
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            293..339
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            340..437
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            438..560
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            561..827
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            828..908
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            909..968
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            969..1025
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1026..1048
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1049..1104
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1105..1305
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1306..1382
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1383..1427
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1428..1560
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1561..1649
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1650..1741
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1742..1874
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1875..1962
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     exon            1963..2428
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2409..2414
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /note="hexamer: ATTAAA"
     polyA_site      2428
                     /gene="ABCF3"
                     /gene_synonym="EST201864"
                     /note="major polyA site"
ORIGIN      
        1 gagtggaaca tggcgacttg cgccgaaatc ctgcggagcg agttccccga aattgacgga
       61 caagtcttcg actacgtgac cggcgtcttg cacagcggca gcgcggactt cgagtctgtg
      121 gatgacctgg tggaagctgt aggggaacta ttgcaagagg tgtccgggga cagcaaggat
      181 gacgcgggca tcagggccgt gtgccagcgc atggctgagc cacaaagcca gggaaatagc
      241 caggtgctac tggacgcccc tatccagttg tcaaagataa cggagaacta cgactgtgga
      301 accaaacttc caggactgct aaagagggaa cagtcctcga cagtgaatgc aaagaagtta
      361 gagaaggccg aggctcgact taaggcaaag caggagaagc gctcagagaa ggacacgctc
      421 aagaccagca accctctagt cttagaagag gcatcagcca gccaggcagg cagcagaaag
      481 gagagtcggt tggaatcatc tggcaagaac aaatcctatg atgtgcgaat tgagaacttt
      541 gatgtgtctt ttggcgatag agtactgctg gctggagcgg atgtgaacct ggcatggggc
      601 cgccgttacg ggctggtggg gcggaatggg ttggggaaga caacgttact gaagatgctg
      661 gccacccgga gtctgcgggt tccagcccac atttccctgc tgcacgttga gcaagaggtt
      721 gctggagatg acactcctgc cctgcagagt gtgctggaga gtgacagtgt gcgagaggat
      781 ttgctacgga gggagcggga gctcactgcc cagattgctg ctggcagggc ggagggctct
      841 gaagctgcag agctggcaga aatctatgcc aaactggagg agattgaggc tgacaaggca
      901 cctgccaggg catcagtcat tctcgctggg cttggcttta cccctaaaat gcagcagcag
      961 cccacccggg agttctcagg tggctggagg atgaggctgg ccctggcccg ggccctcttt
     1021 gctaggccag atcttctgct gttagatgaa cctacaaaca tgctggatgt cagggccatc
     1081 ctgtggctgg agaattacct gcagacgtgg ccctccacca tcctagtcgt ctcccacgac
     1141 cgcaacttct tgaatgccat cgccacagac atcatccacc tgcacagcca gcggctagat
     1201 ggttaccggg gagactttga gaccttcatc aagagtaagc aggagcggct gctcaaccag
     1261 cagcgtgaat atgaggcgca gcagcagtat cgccagcaca tccaggtttt cattgaccgg
     1321 tttcgctaca atgccaacag ggcctctcaa gtgcagagta aactcaagat gctggagaag
     1381 ctgcctgagc tgaagcctgt ggacaaggaa tcagaggtcg taatgaagtt ccctgatggg
     1441 tttgagaagt tctcgccgcc aattctgcag ctagatgagg tggatttcta ctacgatccg
     1501 aagcacgtca tcttcagtcg cctctctgtg tctgctgatc tcgagtctcg catctgtgtg
     1561 gttggagaga atggggctgg gaagtctacc atgctgaagc tgcttttggg ggacctggca
     1621 cctgttcggg gcatcagaca cgctcacagg aatctgaaga ttggctattt cagccagcac
     1681 catgtggagc agctggacct aaacgtcagt gctgtggaac tgctggcacg caagtttcct
     1741 gggcggcctg aggaggagta ccgtcaccag ctgggtcggt atggcatctc cggagaactg
     1801 gccatgcgtc ctcttgccag cctgtctggg ggccagaaga gccgagtggc ctttgctcag
     1861 atgactatgc cctgccccaa cttctacatt ctggatgaac ccacaaacca cctggacatg
     1921 gagaccattg aggctctggg ccgtgccctc aacaatttca ggggtggtgt gattctggtg
     1981 tcccacgatg agcgctttat caggctggtg tgccgggagt tgtgggtatg cgaaggaggc
     2041 ggcgtcaccc gtgtggaagg aggatttgac cagtaccgcg ccctcctcca ggaacagttc
     2101 cgccgcgaag gcttcctcta gggccaccag gctgaggact cgcccaggac atggactggt
     2161 ctctcagacc cctgggccac catgtaggcc accactccag gccgtggact tcccccaact
     2221 tggggacagc cttattccca aatgtctcta tccttttgac tggagcatct tctgcacaac
     2281 cttgggagcc catccaaggg ttggtgagga ctggtctccc gggggtgggg gtctgggggg
     2341 taccctctgg ggttatagat tcccccactg ccccagctct gactggaccc caagtggctg
     2401 ctatgtaaat taaatctctc cccgcgtc
//
