GGRNA ver.2 Home | Help | Advanced search    Previous release (v1)

2024-05-02 01:54:17, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_001332665            1163 bp    mRNA    linear   PLN 20-OCT-2022
DEFINITION  Arabidopsis thaliana UDP-3-O-acyl N-acetylglycosamine deacetylase
            family protein (LpxC1), partial mRNA.
ACCESSION   NM_001332665
VERSION     NM_001332665.1
DBLINK      BioProject: PRJNA116
            BioSample: SAMN03081427
KEYWORDS    RefSeq.
SOURCE      Arabidopsis thaliana (thale cress)
  ORGANISM  Arabidopsis thaliana
            Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
            Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
            Pentapetalae; rosids; malvids; Brassicales; Brassicaceae;
            Camelineae; Arabidopsis.
REFERENCE   1  (bases 1 to 1163)
  AUTHORS   Theologis,A., Ecker,J.R., Palm,C.J., Federspiel,N.A., Kaul,S.,
            White,O., Alonso,J., Altafi,H., Araujo,R., Bowman,C.L.,
            Brooks,S.Y., Buehler,E., Chan,A., Chao,Q., Chen,H., Cheuk,R.F.,
            Chin,C.W., Chung,M.K., Conn,L., Conway,A.B., Conway,A.R.,
            Creasy,T.H., Dewar,K., Dunn,P., Etgu,P., Feldblyum,T.V., Feng,J.,
            Fong,B., Fujii,C.Y., Gill,J.E., Goldsmith,A.D., Haas,B.,
            Hansen,N.F., Hughes,B., Huizar,L., Hunter,J.L., Jenkins,J.,
            Johnson-Hopson,C., Khan,S., Khaykin,E., Kim,C.J., Koo,H.L.,
            Kremenetskaia,I., Kurtz,D.B., Kwan,A., Lam,B., Langin-Hooper,S.,
            Lee,A., Lee,J.M., Lenz,C.A., Li,J.H., Li,Y., Lin,X., Liu,S.X.,
            Liu,Z.A., Luros,J.S., Maiti,R., Marziali,A., Militscher,J.,
            Miranda,M., Nguyen,M., Nierman,W.C., Osborne,B.I., Pai,G.,
            Peterson,J., Pham,P.K., Rizzo,M., Rooney,T., Rowley,D., Sakano,H.,
            Salzberg,S.L., Schwartz,J.R., Shinn,P., Southwick,A.M., Sun,H.,
            Tallon,L.J., Tambunga,G., Toriumi,M.J., Town,C.D., Utterback,T.,
            Van Aken,S., Vaysberg,M., Vysotskaia,V.S., Walker,M., Wu,D., Yu,G.,
            Fraser,C.M., Venter,J.C. and Davis,R.W.
  TITLE     Sequence and analysis of chromosome 1 of the plant Arabidopsis
            thaliana
  JOURNAL   Nature 408 (6814), 816-820 (2000)
   PUBMED   11130712
REFERENCE   2  (bases 1 to 1163)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (19-OCT-2022) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   3  (bases 1 to 1163)
  AUTHORS   Krishnakumar,V., Cheng,C.-Y., Chan,A.P., Schobel,S., Kim,M.,
            Ferlanti,E.S., Belyaeva,I., Rosen,B.D., Micklem,G., Miller,J.R.,
            Vaughn,M. and Town,C.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-JUL-2017) Plant Genomics, J. Craig Venter Institute,
            9704 Medical Center Dr, Rockville, MD 20850, USA
  REMARK    Protein update by submitter
REFERENCE   4  (bases 1 to 1163)
  AUTHORS   Krishnakumar,V., Cheng,C.-Y., Chan,A.P., Schobel,S., Kim,M.,
            Ferlanti,E.S., Belyaeva,I., Rosen,B.D., Micklem,G., Miller,J.R.,
            Vaughn,M. and Town,C.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-MAY-2016) Plant Genomics, J. Craig Venter Institute,
            9704 Medical Center Dr, Rockville, MD 20850, USA
  REMARK    Protein update by submitter
REFERENCE   5  (bases 1 to 1163)
  AUTHORS   Swarbreck,D., Lamesch,P., Wilks,C. and Huala,E.
  CONSRTM   TAIR
  TITLE     Direct Submission
  JOURNAL   Submitted (18-FEB-2011) Department of Plant Biology, Carnegie
            Institution, 260 Panama Street, Stanford, CA, USA
COMMENT     REVIEWED REFSEQ: This record has been curated by TAIR and Araport.
            This record is derived from an annotated genomic sequence
            (NC_003070).
            COMPLETENESS: incomplete on the 5' end.
FEATURES             Location/Qualifiers
     source          1..1163
                     /organism="Arabidopsis thaliana"
                     /mol_type="mRNA"
                     /db_xref="taxon:3702"
                     /chromosome="1"
                     /ecotype="Columbia"
     gene            <1..1163
                     /gene="LpxC1"
                     /locus_tag="AT1G24793"
                     /gene_synonym="AtLpxC1; F5A9.18; lipid X C1"
                     /db_xref="Araport:AT1G24793"
                     /db_xref="GeneID:839084"
                     /db_xref="TAIR:AT1G24793"
     CDS             1..777
                     /gene="LpxC1"
                     /locus_tag="AT1G24793"
                     /gene_synonym="AtLpxC1; F5A9.18; lipid X C1"
                     /inference="Similar to RNA sequence,
                     EST:INSD:EL045360.1,INSD:ES066548.1,INSD:ES144851.1,
                     INSD:BE527029.1,INSD:ES212294.1,INSD:EH926070.1,
                     INSD:BE525768.1,INSD:ES176129.1,INSD:DR275515.1,
                     INSD:ES152335.1,INSD:AV824197.1,INSD:BP844208.1,
                     INSD:ES007923.1,INSD:EL213782.1,INSD:EL214806.1,
                     INSD:EH955550.1,INSD:BE530179.1,INSD:EL300064.1"
                     /inference="similar to RNA sequence, mRNA:INSD:AY094436.1"
                     /note="UDP-3-O-acyl N-acetylglycosamine deacetylase family
                     protein; FUNCTIONS IN: UDP-3-O-[3-hydroxymyristoyl]
                     N-acetylglucosamine deacetylase activity; INVOLVED IN:
                     lipid A biosynthetic process; EXPRESSED IN: male
                     gametophyte, pollen tube; EXPRESSED DURING: L mature
                     pollen stage, M germinated pollen stage; CONTAINS InterPro
                     DOMAIN/s: UDP-3-O-acyl N-acetylglucosamine deacetylase,
                     N-terminal (InterPro:IPR015870), UDP-3-O-acyl
                     N-acetylglucosamine deacetylase (InterPro:IPR004463),
                     Ribosomal protein S5 domain 2-type fold
                     (InterPro:IPR020568), UDP-3-O-acyl N-acetylglucosamine
                     deacetylase, C-terminal (InterPro:IPR011334); BEST
                     Arabidopsis thaliana protein match is: UDP-3-O-acyl
                     N-acetylglycosamine deacetylase family protein
                     (TAIR:AT1G25210.2); Has 5025 Blast hits to 5025 proteins
                     in 1409 species: Archae - 0; Bacteria - 2975; Metazoa - 1;
                     Fungi - 0; Plants - 55; Viruses - 0; Other Eukaryotes -
                     1994 (source: NCBI BLink)."
                     /codon_start=1
                     /product="UDP-3-O-acyl N-acetylglycosamine deacetylase
                     family protein"
                     /protein_id="NP_001319076.1"
                     /db_xref="Araport:AT1G24793"
                     /db_xref="GeneID:839084"
                     /db_xref="TAIR:AT1G24793"
                     /translation="
MRLPVTVKATKPSFLVIWIRYSSAASSPTVSLNPSGRLQQTLAGSVEVKGKSLHSGKFSTVKLNPEIAGAGRFFEFRSRFIPASIEFAQESPLCTTLLKDELKIRTVEHLLSALEAKGVDNCRIQIESESSDDREVEVPIFDGSAKEWVDAIQGVGINAAQNHDGESVEKMVAHVNKPVYVCKNDTFVAAFPALETRITCGIDFPQVPAIGCQWFSWRPIHESSFAKDIASSRTFCVYEEVERMREAGLIKGALSMDG"
     misc_feature    115..>771
                     /gene="LpxC1"
                     /locus_tag="AT1G24793"
                     /gene_synonym="AtLpxC1; F5A9.18; lipid X C1"
                     /note="UDP-3-O-acyl N-acetylglycosamine deacetylase;
                     Region: LpxC; cl00512"
                     /db_xref="CDD:444949"
ORIGIN      
atgagactccccgtcaccgtcaaagccactaagccgtcgtttctcgtcatttggatccgatactcctccgccgcgtcgtcgccgacagtctccttgaatccaagtggacgattacagcaaactctcgcaggatctgtggaagtgaaaggaaaatctctgcactccggtaagttctcgacggtgaagctaaatccggagatcgccggagctggtaggttcttcgagtttcgatccagattcatccctgcgtcgattgaatttgctcaggaatcgcctctttgcacgacgctgttgaaagatgagctcaaaatccgaaccgttgagcatttgttatcagctcttgaggcgaagggagttgataattgcaggattcaaatcgagagcgaaagttccgatgatcgagaagtcgaggtccctatttttgatggatcagctaaagaatgggtcgatgcgatacaaggagttggcataaacgcggctcaaaaccatgatggtgaaagtgtagagaagatggtcgcacatgtgaacaagcctgtgtatgtttgcaagaacgatacttttgttgctgcatttccggctctagagactcggatcacttgtggtatcgacttcccacaggtgcctgctataggctgccaatggttttcttggagacctatccatgagtcttcttttgcaaaggatatcgcatcatcaagaaccttctgtgtctatgaagaggtggagcgtatgcgtgaagcagggctcattaaaggagcgctgagcatggatggatgaatcctcctctgcggtttgatgatgaagcatgtcgacataagattcttgacctaatcggtgacctctcccttgtttcacggggcggaaatggaggactccccgtggctcacatagtcgcatataaggcgggtcatgcactgcacactgacttagcacgtcaccttaccatggactgaagagtatgtgctcgttgtcaaccatatcccgcaaaagccttgatcgtttctgtttctttttggattcgttatccaaagatggtaccaatgtgggatttttgtttgttcaatggaagatcattactcttgtgaatacagtaaaatttgtaacattaaactattttaggtactaatcatagggacattttaaccgatcaaactgttccaaaa
//

by @meso_cacase at DBCLS
This page is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]