ViewGene

Locus Name:
GeneID:
Location:

GeneID:4235
TrivialName: PA14_06180
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_06180
PAO1 Ortholog Locus:PA0472
Sequence Length:519
Protein Length:172
Start: 546826
Stop: 546308
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03861.1|AE004485_2 (AE004485) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 172/172 (100%), Positives = 172/172 (100%)
Sequence:
GTGTCGGCGGGTGACGTCAGCAACAGCGAATTCGTGGGTAGCCTGTACCGGGACCACCGCGGCTGGCTGCTT
GCCTGGCTGAACCGCAACCTCGGCTGCCGCCAGCGCGCCGAAGACCTCAGCCAGGACACCTTCGTTCGCCTC
CTCGGCCGCCCGGAGCTGCCCGGCCTGCGCGAACCGCGCGCGTTCCTGGCGAAGGTGGCGCGCGGCCTGATG
ATCGACCACTTCCGCCGCGCCGCCCTTGAGCAGGCCTATCTCGCCGAACTGGCGCTGGTTCCGGAAGCGGAG
CAGCCTTCGGCCGAAGAGCAGTACCTGATTCTCGAGGACCTCCGCGAGATCGATCGCCTGCTTGGCACGCTG
TCGCTGAAGGCGCGCAGCGCGTTTCTCTATAGCCGCCTGGACGGCATGCCCCACGCGGAGATCGCCGAGCGT
CTCGGAGTCTCGGTGCCGCGCGTGCGCCAATACCTGGCCCAGGGCCTGCGCCAGTGCTACATCGCCCTCTAC
GGAGAGCCCCGGTGA
Translation:
MSAGDVSNSEFVGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRPELPGLREPRAFLAKVARGLM
IDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGTLSLKARSAFLYSRLDGMPHAEIAER
LGVSVPRVRQYLAQGLRQCYIALYGEPR*
AnnotationID:4241GeneID:4235
AnnotatorUID: diggins
Modification Date/Time: 2005-03-27 09:09:03
Gene Name:
Confidence Code:3
GeneProduct:putative RNA polymerase sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:fiuI
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1595
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN65983.1|AE016227_4 (AE016775) RNA polymerase sigma-70 factor, ECF subfamily
           [Pseudomonas putida KT2440]
          Length = 172

 Score =  270 bits (690), Expect = 3e-72
 Identities = 134/171 (78%), Positives = 151/171 (88%)

>gb|AAO53988.1| (AE016857) RNA polymerase sigma-70 family protein [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 172

 Score =  261 bits (667), Expect = 1e-69
 Identities = 131/171 (76%), Positives = 147/171 (85%)

Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog 
[Transcription]
CD-Length = 182 residues,  93.4% aligned
Score = 99.8 bits (248), Expect = 2e-22
Identities = 53/170 (31%), Positives = 79/170 (46%), Gaps = 3/170 (1%)
Genomic Context:
Comment:
ReferenceID:15048
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:25613
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:33789
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:4235_cdd.html
URL:
Homologs By Global Alignment
Gene ID:4235

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
6525 PA0472_tr translation of PA0472 172 99.99 99.99 0 875.0
177239 gb|AAG03861.1|AE004485_2 (AE004485) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1] 172 99.41 99.99 0 872.0
177240 gb|AAC06218.1| (AF051691) ECF sigma factor [Pseudomonas aeruginosa] 172 97.09 97.67 2 829.0
177241 gb|AAN65983.1|AE016227_4 (AE016775) RNA polymerase sigma-70 factor, ECF subfamily [Pseudomonas putida KT2440] 172 77.32 87.79 0 685.0
177242 gb|AAO53988.1| (AE016857) RNA polymerase sigma-70 family protein [Pseudomonas syringae pv. tomato str. DC3000] 172 75.58 85.46 0 662.0
GC ORFID: 47237How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA0472Glimmer Score:
Start: 6348168Stop: 6347650
Length: 519
Start Codon: GTGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA0472 translation of PA0472Homolog Bit Score 341.0
Other Homologs: psyr_15may02_Scaffold6_revised_gene6627 (ORF: BLASTX 265.0), t_PA1912 (ORF: BLASTX 160.0), t_PA2468 (ORF: BLASTX 156.0), t_PA3899 (ORF: BLASTX 154.0), t_PA2050 (ORF: BLASTX 145.0), psyr_15may02_Scaffold3_revised_gene5013 (ORF: BLASTX 144.0), psyr_15may02_Scaffold1_revised_gene1362 (ORF: BLASTX 141.0), t_PA2093 (ORF: BLASTX 133.0), t_PA4896 (ORF: BLASTX 118.0)
GC ORF Sequence
GTGTCGGCGGGTGACGTCAGCAACAGCGAATTCGTGGGTAGCCTGTACCGGGACCACCGCGGCTGGCTGCTT
GCCTGGCTGAACCGCAACCTCGGCTGCCGCCAGCGCGCCGAAGACCTCAGCCAGGACACCTTCGTTCGCCTC
CTCGGCCGCCCGGAGCTGCCCGGCCTGCGCGAACCGCGCGCGTTCCTGGCGAAGGTGGCGCGCGGCCTGATG
ATCGACCACTTCCGCCGCGCCGCCCTTGAGCAGGCCTATCTCGCCGAACTGGCGCTGGTTCCGGAAGCGGAG
CAGCCTTCGGCCGAAGAGCAGTACCTGATTCTCGAGGACCTCCGCGAGATCGATCGCCTGCTTGGCACGCTG
TCGCTGAAGGCGCGCAGCGCGTTTCTCTATAGCCGCCTGGACGGCATGCCCCACGCGGAGATCGCCGAGCGT
CTCGGAGTCTCGGTGCCGCGCGTGCGCCAATACCTGGCCCAGGGCCTGCGCCAGTGCTACATCGCCCTCTAC
GGAGAGCCCCGGTGA