ViewGene

Locus Name:
GeneID:
Location:

GeneID:4288
TrivialName: PA14_19990
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_19990
PAO1 Ortholog Locus:PA3410
Sequence Length:516
Protein Length:171
Start: 1720161
Stop: 1720676
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06798.1|AE004762_4 (AE004762) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 169/171 (98%), Positives = 170/171 (99%)
Sequence:
GTGGATGCGCCGTTGGCGGAGCAGGATCTCAAGGCACTGTTTCTCAGGCATGCCCGGCAGTTGCAGTCGTAT
CTGTTGCGCAAGACCCGCGATCCGCACCTGGCGGCGGACCTGGCGCAGGAAAGCTTCCTGCGCCTGGCCGAG
CAGCGGCACAAGGAGCCGATCGAGCATGTCGACGCCTATCTCTACCGCACCGCGCACAACCTCACCATCGAC
CATTACCGGCAGGAACGGCGGCGCCGCACCGAGACCCGCCCCAACGACGACCTCGCCGGGTTCGTCGCCGAC
CAGCCCGGCCCCGAGGAGTCCGCGGTGGATGCCGATGCGCTTGCCCGCCTGCGCGAGATAGTCGCCGAACTG
CCGCCGCGCACCCGTGAGATCTTCCGTCTCAACCGTCTGGAGGGGCTGACCCATGCCGAGGTGGCGAGACGC
CTGGAAATCTCCGATAGCTCGGTGCAGAAGCACCTGGCCCGCGCCCTGGCCCATGTGATGCAGGCACTCGAG
GATTCCCGCTGA
Translation:
MDAPLAEQDLKALFLRHARQLQSYLLRKTRDPHLAADLAQESFLRLAEQRHKEPIEHVDAYLYRTAHNLTID
HYRQERRRRTETRPNDDLAGFVADQPGPEESAVDADALARLREIVAELPPRTREIFRLNRLEGLTHAEVARR
LEISDSSVQKHLARALAHVMQALEDSR*
AnnotationID:4294GeneID:4288
AnnotatorUID: diggins
Modification Date/Time: 2005-04-18 12:12:09
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA3410
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:putative DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog
Functional Category Confidence Code:5
COGs:pfam04542,COG1595
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN67805.1|AE016411_10 (AE016782) RNA polymerase sigma-70 factor, ECF
           subfamily/transmembrane sensor protein, putative
           [Pseudomonas putida KT2440]
          Length = 374

 Score = 96.7 bits (239), Expect = 5e-20
 Identities = 55/162 (33%), Positives = 86/162 (53%), Gaps = 1/162 (0%)

>emb|CAE35633.1| (BX640448) ECF-family sigma factor [Bordetella bronchiseptica]
          Length = 177

 Score = 90.1 bits (222), Expect = 5e-18
 Identities = 57/161 (35%), Positives = 88/161 (54%), Gaps = 4/161 (2%)
Structural Features:
pfam04542, Sigma70_r2, Sigma-70 region 2.
CD-Length = 71 residues, 100.0% aligned
Score = 46.4 bits (110), Expect = 2e-06
Identities = 22/71 (30%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues,  91.8% aligned
Score = 93.6 bits (232), Expect = 1e-20
Identities = 58/167 (34%), Positives = 77/167 (46%), Gaps = 1/167 (0%)
Genomic Context:
Comment:
ReferenceID:15058
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:25720
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:32153
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:4288_cdd.html
URL:
Homologs By Global Alignment
Gene ID:4288

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
6600 PA3410_tr translation of PA3410 171 98.83 99.41 0 854.0
178332 gb|AAG06798.1|AE004762_4 (AE004762) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1] 171 98.24 99.41 0 851.0
178333 emb|CAE46934.1| (X81195) hasI [Serratia marcescens] 171 50.29 71.34 5 431.0
GC ORFID: 47290How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA3410Glimmer Score:
Start: 3233771Stop: 3233256
Length: 516
Start Codon: GTGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA3410 translation of PA3410Homolog Bit Score 333.0
Other Homologs: t_PA3410 (ORF: GLIMMER)
GC ORF Sequence
GTGGATGCGCCGTTGGCGGAGCAGGATCTCAAGGCACTGTTTCTCAGGCATGCCCGGCAGTTGCAGTCGTAT
CTGTTGCGCAAGACCCGCGATCCGCACCTGGCGGCGGACCTGGCGCAGGAAAGCTTCCTGCGCCTGGCCGAG
CAGCGGCACAAGGAGCCGATCGAGCATGTCGACGCCTATCTCTACCGCACCGCGCACAACCTCACCATCGAC
CATTACCGGCAGGAACGGCGGCGCCGCACCGAGACCCGCCCCAACGACGACCTCGCCGGGTTCGTCGCCGAC
CAGCCCGGCCCCGAGGAGTCCGCGGTGGATGCCGATGCGCTTGCCCGCCTGCGCGAGATAGTCGCCGAACTG
CCGCCGCGCACCCGTGAGATCTTCCGTCTCAACCGTCTGGAGGGGCTGACCCATGCCGAGGTGGCGAGACGC
CTGGAAATCTCCGATAGCTCGGTGCAGAAGCACCTGGCCCGCGCCCTGGCCCATGTGATGCAGGCACTCGAG
GATTCCCGCTGA