Protein of unknown function ( - Revision history

Mereilly: /* Blast */

2009-09-08T12:29:42Z

‎Blast

Mereilly: /* Blast */

2009-09-08T12:29:27Z

‎Blast

Mereilly at 12:28, 8 September 2009

2009-09-08T12:28:38Z

Mereilly at 12:10, 8 September 2009

2009-09-08T12:10:26Z

Mereilly at 12:02, 8 September 2009

2009-09-08T12:02:56Z

New page

=Dehydrogenase of unknown specificity similar to short-chain alcohol dehydrogenase (ID 644030939) [http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=644030939]=

=Blastn Search=
Megablast and blastn gave no results other than the source genome (''Halomicrobium mukohataei''). When I ran the blast searching for more dissimilar (discontiguous megablast), the results were not helpful - they were either complete genomes or not statistically significant.

=Blastx Search=
This search provided a number of results, however many were hypothetical proteins. A number of results were cupin conserved barrel domain proteins, however I was unable to determine if any of these results were relevant.

=GC Content=
The GC content for this gene is 70% and the GC content for our species' genome is 66%. These percentages are fairly similar, thus ruling out the possibility the possibility that this is an outside gene. There may however exist paralogs and orthologs to this gene.

@@ Line 4: / Line 4: @@
 Megablast confirmed that the sequence is 100% identical to one in (''Halomicrobium mukohataei''). Blast also showed that the microbe (''Halorhabdus utahensis'') has a sequence that is 100% identical to this particular gene, and that (''Saccharopolyspora erythraea'') has two identified genes with sequences similar to those found within this sequence (shown below).
-[[Image:Mr22.png]]
+[[Image:Mr22.PNG]]
 =GC Content=
 The GC content for this gene is 70% and the GC content for our species' genome is 66%. These percentages are fairly similar, thus ruling out the possibility the possibility that this is an outside gene. There may however exist paralogs and orthologs to this gene.

← Older revision		Revision as of 12:10, 8 September 2009
Line 1:		Line 1:
−	=~~Dehydrogenase of unknown specificity similar to short-chain alcohol dehydrogenase~~ (ID ~~644030939~~) [http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=~~644030939~~]=	+	=Conserved hypothetical protein TIGR00162 (ID 644030738) [http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=644030738 644030738]=

	=Blastn Search=		=Blastn Search=

@@ Line 1: / Line 1: @@
-=Conserved hypothetical protein TIGR00162 (ID 644030738) [http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=644030738 644030738]=
+=Conserved hypothetical protein TIGR00162 [http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=644030738 644030738]=
-=Blastn Search=
+=Blast=
-Megablast and blastn gave no results other than the source genome (''Halomicrobium mukohataei''). When I ran the blast searching for more dissimilar (discontiguous megablast), the results were not helpful - they were either complete genomes or not statistically significant.
+Megablast confirmed that the sequence is 100% identical to one in (''Halomicrobium mukohataei''). Blast also showed that the microbe (''Halorhabdus utahensis'') has a sequence that is 100% identical to this particular gene, and that (''Saccharopolyspora erythraea'') has two identified genes with sequences similar to those found within this sequence (shown below).
 =GC Content=
 The GC content for this gene is 70% and the GC content for our species' genome is 66%. These percentages are fairly similar, thus ruling out the possibility the possibility that this is an outside gene. There may however exist paralogs and orthologs to this gene.