Archives


Lots of Things are New

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I have not written a What’s New section in a long time. Lots of things are new. The rice genome P450s have been identified from the two strains: indica (Chinese project) and japonica (public international project). There are 952 sequences identified between these two strains and 485 different genes. I am in the process of… Read More

Fugu Sequences Named

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The Fugu sequences are now named and a tree and alignment are on the server. To see the FASTA format of the sequence contigs sorted by family go to FASTA Sequence List To see the alignment of human and Fugu sequences go to Human Fugu alignment 47 Fugu genes have been aligned to 60 human… Read More

Finished Searching the Fugu Genome

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I have finished searching the Fugu genome for P450s. These are annotated and will soon be named. There are 36 full length sequences and 11 more are almost full length, for 47. There are six more that run off the ends of scaffolds and are probably real P450 genes. There are 26 other partials. See… Read More

G4 Mac Server Upgraded

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I have upgraded my P450 server to a G4 Mac so you may notice some improvement in speed.

Server Back Online after 6 Days of Outage

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The server was down from noon on the 27th of Nov. to this morning Dec 3, almost 6 days. This is the longest it has been down since Feb. 1995 when I started it. It was unfortunate that I left town on the 28th without knowing it was down and I did not get back… Read More

Rice P450 Set More Complete

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The rice P450 set is getting more complete. Additional P450s have been found on newly deposited genomic clones and some fragments have been joined to make longer P450 contigs. There are now 290 contigs including 166 full length sequences plus 46 pseudogene pieces. There are 78 partial sequences that may be parts of complete genes.… Read More

Lolium Rigidum

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16 Lolium rigidum plant P450s have been posted to the home page. Go to Lolium on the main table.

All Rice P450 Fragments Identified

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I have searched the public data at Genbank for rice P450s in the nr, htgs, gss and est sections. All P450 fragments have been identified and Blast searches have been done of all fragments against each other to identify overlapping fragments and assemble them into contigs. Currently there are 296 contigs. These are composed of… Read More

Chlamydomonas From the EST Project

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Chlamydomonas P450s from the EST project have been added to the species table. There are very few known so far, but they include CYP51 and two CYP97s. Rice has been added to our blast server (219 sequences, 47,693 letters) These include some new full length P450s found in Genbank. There are still many short pieces… Read More

BLAST Server Setup for Searching P450 Sets

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A BLAST server has been set up on a RedHat Linux machine to allow blast searching of selected P450 sets. The first set available is all the Arabidopsis P450s, 273 named genes and 16 more unnamed fragments that have not been designated because I do not know if they are really different from the named… Read More