GGRNA Home | Help | Advanced search

2024-03-29 01:42:20, GGRNA : RefSeq release 60 (20130726)

LOCUS       NM_153371               4804 bp    mRNA    linear   PRI 17-APR-2013
DEFINITION  Homo sapiens ligand of numb-protein X 2 (LNX2), mRNA.
ACCESSION   NM_153371
VERSION     NM_153371.3  GI:153791779
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 4804)
  AUTHORS   Mehraj,V., Boucherit,N., Ben Amara,A., Capo,C., Bonatti,S.,
            Mege,J.L., Mottola,G. and Ghigo,E.
  TITLE     The ligands of Numb proteins X1 and X2 are specific markers for
            chronic Q fever
  JOURNAL   FEMS Immunol. Med. Microbiol. 64 (1), 98-100 (2012)
   PUBMED   22066909
  REMARK    GeneRIF: The authors found a high level of LNX1 and LNX2 mRNAs in
            endocarditis, the principal manifestation of chronic Q fever, but
            not in acute Q fever.
REFERENCE   2  (bases 1 to 4804)
  AUTHORS   D'Agostino,M., Tornillo,G., Caporaso,M.G., Barone,M.V., Ghigo,E.,
            Bonatti,S. and Mottola,G.
  TITLE     Ligand of Numb proteins LNX1p80 and LNX2 interact with the human
            glycoprotein CD8alpha and promote its ubiquitylation and
            endocytosis
  JOURNAL   J. Cell. Sci. 124 (PT 21), 3545-3556 (2011)
   PUBMED   22045731
  REMARK    GeneRIF: LNX1 and LNX2 interact with CD8alpha and promote its
            ubiquitylation and endocytosis
REFERENCE   3  (bases 1 to 4804)
  AUTHORS   Kumar,V., Matsuo,K., Takahashi,A., Hosono,N., Tsunoda,T.,
            Kamatani,N., Kong,S.Y., Nakagawa,H., Cui,R., Tanikawa,C., Seto,M.,
            Morishima,Y., Kubo,M., Nakamura,Y. and Matsuda,K.
  TITLE     Common variants on 14q32 and 13q12 are associated with DLBCL
            susceptibility
  JOURNAL   J. Hum. Genet. 56 (6), 436-439 (2011)
   PUBMED   21471979
REFERENCE   4  (bases 1 to 4804)
  AUTHORS   Dunham,A., Matthews,L.H., Burton,J., Ashurst,J.L., Howe,K.L.,
            Ashcroft,K.J., Beare,D.M., Burford,D.C., Hunt,S.E.,
            Griffiths-Jones,S., Jones,M.C., Keenan,S.J., Oliver,K., Scott,C.E.,
            Ainscough,R., Almeida,J.P., Ambrose,K.D., Andrews,D.T.,
            Ashwell,R.I., Babbage,A.K., Bagguley,C.L., Bailey,J., Bannerjee,R.,
            Barlow,K.F., Bates,K., Beasley,H., Bird,C.P., Bray-Allen,S.,
            Brown,A.J., Brown,J.Y., Burrill,W., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M.E., Clark,S.Y., Clarke,G., Clee,C.M.,
            Clegg,S.C., Cobley,V., Collins,J.E., Corby,N., Coville,G.J.,
            Deloukas,P., Dhami,P., Dunham,I., Dunn,M., Earthrowl,M.E.,
            Ellington,A.G., Faulkner,L., Frankish,A.G., Frankland,J.,
            French,L., Garner,P., Garnett,J., Gilbert,J.G., Gilson,C.J.,
            Ghori,J., Grafham,D.V., Gribble,S.M., Griffiths,C., Hall,R.E.,
            Hammond,S., Harley,J.L., Hart,E.A., Heath,P.D., Howden,P.J.,
            Huckle,E.J., Hunt,P.J., Hunt,A.R., Johnson,C., Johnson,D., Kay,M.,
            Kimberley,A.M., King,A., Laird,G.K., Langford,C.J., Lawlor,S.,
            Leongamornlert,D.A., Lloyd,D.M., Lloyd,C., Loveland,J.E.,
            Lovell,J., Martin,S., Mashreghi-Mohammadi,M., McLaren,S.J.,
            McMurray,A., Milne,S., Moore,M.J., Nickerson,T., Palmer,S.A.,
            Pearce,A.V., Peck,A.I., Pelan,S., Phillimore,B., Porter,K.M.,
            Rice,C.M., Searle,S., Sehra,H.K., Shownkeen,R., Skuce,C.D.,
            Smith,M., Steward,C.A., Sycamore,N., Tester,J., Thomas,D.W.,
            Tracey,A., Tromans,A., Tubby,B., Wall,M., Wallis,J.M., West,A.P.,
            Whitehead,S.L., Willey,D.L., Wilming,L., Wray,P.W., Wright,M.W.,
            Young,L., Coulson,A., Durbin,R., Hubbard,T., Sulston,J.E., Beck,S.,
            Bentley,D.R., Rogers,J. and Ross,M.T.
  TITLE     The DNA sequence and analysis of human chromosome 13
  JOURNAL   Nature 428 (6982), 522-528 (2004)
   PUBMED   15057823
REFERENCE   5  (bases 1 to 4804)
  AUTHORS   Rice,D.S., Northcutt,G.M. and Kurschner,C.
  TITLE     The Lnx family proteins function as molecular scaffolds for Numb
            family proteins
  JOURNAL   Mol. Cell. Neurosci. 18 (5), 525-540 (2001)
   PUBMED   11922143
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DB220129.1, BC036755.2, DN990012.1 and AK022995.1.
            On Jul 25, 2007 this sequence version replaced gi:34222215.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC036755.2, AK313394.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           ERS025098 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-172               DB220129.1         1-172
            173-175             BC036755.2         1-3
            176-177             BC036755.2         5-6
            178-708             DN990012.1         113-643
            709-2870            BC036755.2         538-2699
            2871-2991           AK022995.1         644-764
            2992-3041           BC036755.2         2821-2870
            3042-3565           AK022995.1         815-1338
            3566-4804           BC036755.2         3395-4633
FEATURES             Location/Qualifiers
     source          1..4804
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q12.2"
     gene            1..4804
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="ligand of numb-protein X 2"
                     /db_xref="GeneID:222484"
                     /db_xref="HGNC:20421"
                     /db_xref="HPRD:10042"
                     /db_xref="MIM:609733"
     exon            1..209
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     variation       151..157
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /replace=""
                     /replace="ctggtgc"
                     /db_xref="dbSNP:71083680"
     exon            210..716
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     misc_feature    301..303
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="upstream in-frame stop codon"
     CDS             310..2382
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="PDZ domain containing ring finger 1; numb-binding
                     protein 2; PDZ domain-containing RING finger protein 1"
                     /codon_start=1
                     /product="ligand of Numb protein X 2"
                     /protein_id="NP_699202.1"
                     /db_xref="GI:24025688"
                     /db_xref="CCDS:CCDS9323.1"
                     /db_xref="GeneID:222484"
                     /db_xref="HGNC:20421"
                     /db_xref="HPRD:10042"
                     /db_xref="MIM:609733"
                     /translation="
MGTTSDEMVSVEQTSSSSLNPLCFECGQQHWTRENHLYNYQNEVDDDLVCHICLQPLLQPLDTPCGHTFCYKCLRNFLQEKDFCPLDRKRLHFKLCKKSSILVHKLLDKLLVLCPFSSVCKDVMQRCDLEAHLKNRCPGASHRRVALERRKTSRTQAEIENENGPTLLDPAGTLSPEADCLGTGAVPVERHLTSASLSTWSEEPGLDNPAFEESAGADTTQQPLSLPEGEITTIEIHRSNPYIQLGISIVGGNETPLINIVIQEVYRDGVIARDGRLLAGDQILQVNNYNISNVSHNYARAVLSQPCNTLHLTVLRERRFGNRAHNHSDSNSPREEIFQVALHKRDSGEQLGIKLVRRTDEPGVFILDLLEGGLAAQDGRLSSNDRVLAINGHDLKYGTPELAAQIIQASGERVNLTIARPGKPQPGNTIREAGNHSSSSQHHTPPPYYSRPSSHKDLTQCVTCQEKHITVKKEPHESLGMTVAGGRGSKSGELPIFVTSVPPHGCLARDGRIKRGDVLLNINGIDLTNLSHSEAVAMLKASAASPAVALKALEVQIVEEATQNAEEQPSTFSENEYDASWSPSWVMWLGLPSTLHSCHDIVLRRSYLGSWGFSIVGGYEENHTNQPFFIKTIVLGTPAYYDGRLKCGDMIVAVNGLSTVGMSHSALVPMLKEQRNKVTLTVICWPGSLV
"
     misc_feature    445..576
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="Zinc finger, C3HC4 type (RING finger); Region:
                     zf-C3HC4_2; pfam13923"
                     /db_xref="CDD:206094"
     misc_feature    457..582
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="RING-finger (Really Interesting New Gene) domain, a
                     specialized type of Zn-finger of 40 to 60 residues that
                     binds two atoms of zinc; defined by the 'cross-brace'
                     motif C-X2-C-X(9-39)-C-X(1-3)-
                     H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved
                     in...; Region: RING; cd00162"
                     /db_xref="CDD:29102"
     misc_feature    order(457..459,466..468,502..504,508..510,517..519,
                     526..528,559..561,568..570)
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="cross-brace motif; other site"
                     /db_xref="CDD:29102"
     misc_feature    931..942
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /experiment="experimental evidence, no additional details
                     recorded"
                     /note="propagated from UniProtKB/Swiss-Prot (Q8N448.1);
                     Region: NPXY motif"
     misc_feature    1000..1254
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="PDZ domain found in a variety of Eumetazoan
                     signaling molecules, often in tandem arrangements. May be
                     responsible for specific protein-protein interactions, as
                     most PDZ domains bind C-terminal polypeptides, and binding
                     to internal (non-C-terminal)...; Region: PDZ_signaling;
                     cd00992"
                     /db_xref="CDD:29049"
     misc_feature    order(1039..1050,1054..1056,1204..1209,1216..1221)
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="protein binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:29049"
     misc_feature    1318..1566
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="PDZ domain found in a variety of Eumetazoan
                     signaling molecules, often in tandem arrangements. May be
                     responsible for specific protein-protein interactions, as
                     most PDZ domains bind C-terminal polypeptides, and binding
                     to internal (non-C-terminal)...; Region: PDZ_signaling;
                     cd00992"
                     /db_xref="CDD:29049"
     misc_feature    order(1357..1368,1372..1374,1516..1521,1528..1533)
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="protein binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:29049"
     misc_feature    1705..>1911
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="PDZ domain found in a variety of Eumetazoan
                     signaling molecules, often in tandem arrangements. May be
                     responsible for specific protein-protein interactions, as
                     most PDZ domains bind C-terminal polypeptides, and binding
                     to internal (non-C-terminal)...; Region: PDZ_signaling;
                     cd00992"
                     /db_xref="CDD:29049"
     misc_feature    order(1741..1752,1756..1758)
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="protein binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:29049"
     misc_feature    2104..2358
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="PDZ domain found in a variety of Eumetazoan
                     signaling molecules, often in tandem arrangements. May be
                     responsible for specific protein-protein interactions, as
                     most PDZ domains bind C-terminal polypeptides, and binding
                     to internal (non-C-terminal)...; Region: PDZ_signaling;
                     cd00992"
                     /db_xref="CDD:29049"
     misc_feature    order(2137..2148,2152..2154,2308..2313,2320..2325)
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /note="protein binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:29049"
     exon            717..964
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            965..1164
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            1165..1533
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            1534..1677
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            1678..1855
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            1856..2087
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            2088..2246
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     exon            2247..4804
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /inference="alignment:Splign:1.39.8"
     STS             2885..2987
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /standard_name="D11S2921"
                     /db_xref="UniSTS:152074"
     variation       4526
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /replace="c"
                     /replace="t"
                     /db_xref="dbSNP:11542454"
     variation       4684
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /replace="c"
                     /replace="t"
                     /db_xref="dbSNP:1046524"
     STS             4701..4792
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /standard_name="SHGC-24292"
                     /db_xref="UniSTS:70184"
     STS             4701..4780
                     /gene="LNX2"
                     /gene_synonym="PDZRN1"
                     /standard_name="RH91737"
                     /db_xref="UniSTS:87114"
ORIGIN      
aaggcagcaggggcggttgagaagtgaagtcttggccggagtttgctttttgccaggaaatccgcggcggcggcggcggcggcggcgattcctggcggagcggagccgggcaggctctccgctccctcagcgggccgcggagagcgggagctggtgccgagcagcggcgccaggagcccgtgcgcggcccgggcagccgcgctttcccaaaaaacacaccttgactttagtcagatacatcactgtctgttaaaggaaaccaagcgtgaagtggaagtctaacacatgaggatacagaattgattcaaaatgggaacaacaagtgatgagatggtgtctgtggaacagacctcctcctcttctctaaaccccctgtgttttgaatgtggccaacagcactggacaagagaaaaccatttgtacaattaccagaatgaagtggatgatgacctagtctgccatatttgccttcaacctctgctgcagccactagacacaccctgtggacatacattctgctacaagtgcctcagaaactttttacaagagaaagatttctgtccgttggaccggaaaagacttcattttaagttgtgcaagaagtctagtattctagttcataaactcctagacaaattattagttttatgtccattttcttcagtgtgcaaagatgtaatgcaacgttgtgatctggaggcacatctcaaaaacagatgtcctggagcttctcatcggagagttgccctggagagaaggaaaactagtagaactcaagcagagattgagaatgaaaatgggcccactctactagatcctgcaggtaccttatctccagaagcagactgtttggggacaggcgcagtgcctgtggagcggcacttgacatcagcgtctctttccacatggagtgaggagcctggccttgacaaccctgcctttgaggagagcgctggagctgacaccacacaacagccacttagtttaccagaaggagaaatcaccacgattgaaattcatcggtccaatccttacattcagttaggaatcagcattgtgggtggcaacgaaacacctttgattaacattgtcatccaggaggtctatcgggatggggtcattgccagagacgggagacttcttgctggagaccagattcttcaggtcaacaactacaatatcagcaatgtgtcccataactatgcccgagctgtcctttcccagccctgcaacacactgcatcttactgtgcttcgagagaggcgctttggcaaccgagcacacaaccattctgatagtaactctccacgagaagagattttccaagtggctcttcataaacgggactctggtgaacagcttggcattaaattggtgcgaaggacagatgagccaggggtttttattcttgacctgttggaaggggggttggctgcccaggacggcaggctaagcagcaatgaccgagtgctggccatcaatgggcacgacctgaagtatggaactccggagcttgctgcccagattattcaggccagtggagagagagtgaatttaacaattgctagaccagggaaaccccagcctggtaacaccattagagaagcaggaaatcatagcagcagcagccagcaccacacaccaccaccgtattatagcagaccaagctcacataaggatcttactcagtgtgttacatgccaagaaaaacacattactgtaaagaaggaaccacatgaatcccttggcatgaccgttgctgggggcaggggaagtaagagtggtgagctgcccatctttgtgaccagtgtgccaccccatggctgccttgcacgagatggcagaataaagagaggtgatgtgttgctaaatatcaacggcattgatttgaccaatttaagtcacagtgaggcagttgcaatgctgaaagccagtgccgcgtcccctgctgttgcccttaaagcacttgaggtccagattgttgaggaggcgactcagaacgcggaggagcagccgagtactttcagcgaaaatgagtatgatgccagttggtccccatcatgggtcatgtggcttgggcttcccagcacacttcatagctgccacgatatagttttacgaagaagttacttgggaagttggggctttagtatcgttggtggatatgaagagaaccacaccaatcagccttttttcattaaaactattgtcttgggaactcctgcttattatgatggaagattaaagtgtggtgacatgattgtggccgtaaatgggctgtcaaccgtgggcatgagccactctgcactagttcccatgttgaaggagcagaggaacaaagtcactctgaccgttatttgttggcctggcagccttgtatagattttggaaattggtttcaaatcttgcatcttccttttttagatttttgaaagaaaaccctttggtttcattgtgtttgtggtttaggagctgctgacactgctggtatacacagggccaaaacccactaagattgtccgtttatgtttatttaaatggtttcctaagttagttacatttcttttagcttggaaacagtcttccactaacctttgtgagtttatattttcagaattcagacttagttgttaaaatgttacctatggtaatgagcaaagctcacccaaactgtgccccagatggagtaaagaccttctggtgggtctttgttttcagtaactgaatcatagaacgagttctgtatccctcaggcctgatgtcagcaaagccagtaacaacagcgtgtactgccactgtcataaccaataccatgaatgaatatactttaaattttggtgataactgttccccatttttttttgaaccacagtctcactctcacccaggctggagtgcagtggcacaatctcagctcactgcaagctccgcctcctgggttcacgccattctcccacctcagcctcccgagtagctgggactacaggcgtgtgccaccatgcccagctaattttttgtacttttagtagagacggggtttcaccgtgttagccaggatggtctcgatctcctgaccttgtgatctgcccgcctcagcctcccaaagtgctgggattacaggtgtgagctgccgcacccggccgttcccattttttattggtgccaacatttcaaaacttcatactgtttataaactgattttctggtttatttctactgtaatctctcaatattcatagaagatgaagaaataagtctgacaacactaaagaaatttcttaatatactattattagaatagtagaggataaaagataatgttatccagttacaaaggaatttggatgataattataacttaatgttagagatggtaaagctgcacttacttgaacagcccaaaagcattaaaaatctatttccagaggaatgttttgctatgtagggaaattttgaagtagtttttgctaaaaaattatttctagagttgtgttattcttagcagtaatcttggctagaaatgtttttgtgatttatgcgattaaacgaaatgataaagataaaaccatattattaaatacctatatatcacagctaagtaggagaaagggagacctttttattttgttcaggtaggagtatttcttgtgtattttagaaacaattatttttcccattatttcttatgagattagttgtttcaagtaggagacagaaaagttctgttttgttggaaatgtaggttttagatgtatctttcagtcagctctcagtcactagactatttcatattttttgaaatgtttttgaaaattatgactagcccattttttgtcctttattcaacatacttatcctctgaacacataaataagtgaataagataaaaatatctttaccttattaatattatacatacttgaaaaaaatttcatttagaaacctagttcagaatctgagcaaatttacaagtgacctctgtaataaatggtattgataatcagagaatgtatttcagaatactacagtacaatatattatgaagcatgaccactttattttgaaacttagcaattgtattgctggggtttattgtatctgtagcatgtcactgattatttcagttagttttataatgatttttaaaaaacatatctatttggaataagatacagcaacaatcattgctactgacttgttcaaccccttagttacactgtatgatcaacatataacaagatacagtggaatggcccatacagtatattactgttgtgtgatgattggctttggaagcagtttgattttgaaatgctttgatattctaattgacatggaacaagttttttccctgctccccaaatagaattttgtaaccaactttgctatttttttaaagtttgtaagaatgtgtcatttcttggggagtagccatccatcaacaaatatcctgactgctactttgttatatacaaaatacttacattgaacctggtggcataatgagtattttgaaagaagaaatttcttcactctcatttttatagaaatcttggaatcagcttaagctgtagcttttatgacaaaagacagtcatttttggtcagagtgatatttggtgacggaaacttgttcataatttattgttactatagaactatttggattttctcatttttagttctgatagttaaatattttggtttgttctgtgccttcagtttaaattatttcaggatttttcagatgtttaaataatggtgtgaatcattcaggatggaaataaaagtcatcctttctgtaa
//

Annotations:

ANNOTATIONS from NCBI Entrez Gene (20130726):
            GeneID:222484 -> Molecular function: GO:0005515 [protein binding] evidence: IPI
            GeneID:222484 -> Molecular function: GO:0008270 [zinc ion binding] evidence: IEA
            GeneID:222484 -> Molecular function: GO:0030165 [PDZ domain binding] evidence: IEA
            GeneID:222484 -> Biological process: GO:0051260 [protein homooligomerization] evidence: IEA

by @meso_cacase at DBCLS
This page is licensed under a Creative Commons Attribution 2.1 Japan License.