Phaeodactylum tricornutum CCAP 1055/1 chromosome 19, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Bacillariophyceae; Bacillariophycidae; Naviculales; Phaeodactylaceae; Phaeodactylum.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (12-AUG-2008) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
PROVISIONAL REFSEQ: This record has not yet been subject to final\nNCBI review. The reference sequence is identical to CM000621.\nURL -- http://www.jgi.doe.gov/phaeodactylum\nJGI Project ID: 3634397\nContacts: Chris Bowler (cbowler@biologie.ens.fr)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. tricornutum that was sequenced is CCAP1055/1 and is\navailable from the Culture collection of Algae and Protozoa\n(http://www.ccap.ac.uk). This clone represents a monoclonal culture\nderived from a fusiform cell in May 2003 from strain CCCP632, which\nwas originally isolated in 1956 off Blackpool (U.K.). It has been\nmaintained in culture continuously in F/2 medium.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 3 and 11 are complete and present in GenBank records\nCP001142 and CP001141, respectively.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nAnnotated scaffolds were added in December 2008.\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: INSDC submitter\nAnnotation Status :: Full annotation\nAnnotation Pipeline :: Eukaryotic Annotation Propagation Pipeline\n##Genome-Annotation-Data-END##
putative delta-4 desaturase involved in the desaturation of sphingolipids.
protein fucoxanthin chlorophyll a/c protein
R2 familly is essential for both accurate DNA replication, repair and blocks deoxyribonucleotide production during G1 KEN box sequence
Kinesin-related motor protein, involved in microtubule-based motility
Rab-type small GTPase, ortholog of T. pseudonana TPS_98467
Glucokinase, N-terminal signal peptide and C-terminal transmembrane helix predicted, intron not supported by EST data, compare to Protein ID 48774; Alternative splicing variant 2
Has EST support; Alternative splicing variant 1
Glucokinase, no targeting signal predicted, contains C-terminal transmembrane helix, N-terminus supported by EST data, compare to Protein ID 56514; Alternative splicing variant 1
fucoxanthin chlorophyll a/c protein, deviant
involved in iron-sulphur cluster assembly; extended N terminus contains putative ER signal peptide (SignalP score = 0.618).
FMN-binding domain, putative electron-transfer activity; similarity to conserved domain characteristic for putative heme iron utilization protein; secretory pathway; unknownn protein
unknown function; weak similarity to transcriptional regulator protein; located in cytosol; unknownn protein
unknown function; Calcium-binding EF-hand; secretory pathway; unknownn protein
contains bipartite plastid targeting presequence, signal- and transit-peptides predicted at N-terminus with conserved motif at signal peptide cleavage site
DNA/RNA binding protein; may play a role in transcription repression
Prohibitin-like Protein, used in cell defense
copper-transporting ATPase, heavy metal transporting ATPase
Probably an oxidoreductase (acting on CH-OH donors with NAD+ or NADP+ as acceptor), possibly a 3-beta-hydroxy-delta-5-steroid dehydrogenase involved in steroid synthesis.
The La protein occurs in both the nucleus and the cytoplasm, where it takes on different roles. In the nucleus, La facilitates the production of tRNAs, acting as a RNA polymerase III (RNAP III) transcription factor by binding to the U-rich 3UTR of nascent transcripts, assisting in their folding and maturation. In the cytoplasm, La facilitates the translation of specific mRNAs, acting as a translation factor. As a RNA binding protein (RBP), La associates with subsets of mRNAs that contain a 5-terminal oligopyrimidine (5’TOP) motif known to control protein synthesis. The binding of La to specific classes of RNA molecules regulates their downstream processing, protects them from endonuclease digestion, and organises their export from the nucleus.
Ran-family small GTPase, ortholog of T. pseudonana TPS_164980
Gene of unknown function that contains a prolyl 4-hyroxylase domain. This is a very common domain in diatom genomes. This gene also contains a Metridin0like Shk toxin domain. Metridin is a toxin produced by a brown anemonae. There are many ESTs for this gene under conditions of nitrate starvation.
Sar1-like small GTPase, ortholog of T. pseudonana TPS_21371