ViewGene

Locus Name:
GeneID:
Location:

GeneID: 4224

TrivialName: PA14_37430

AnnotatorUID:

Modification Date/Time: 2006-04-06 13:01:23

LocusName: PA14_37430

PAO1 Ortholog Locus: PA2093

Sequence Length: 510

Protein Length: 169

Start: 3332065

Stop: 3331556

Strand: -

Type:

ChromosomeID: 2

Status: ACTIVE

Frame Discrepancy: FALSE

Missense Discrepancy: FALSE

Comments:
Homology: gb|AAG05481.1|AE004637_1 (AE004637) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1] Identities = 169/169 (100%), Positives = 169/169 (100%)

Sequence:

ATGGATAGCCAAGGCTCCATCAAGAACACCCTGATCGCCCAGTTGTTCCAGCAGAACTACGACTGGCTGTGC
AAGAAACTGTCCTACCAGACCGGCTGTAGCCACAGCGCCGAAGACCTCGCCGCCGAAGCCTTCCTGCAGGTC
TGGATGCTCCCCGACCCGGCGTCGATCCGCTCGCCGCGGGCGTTCCTCGCGACCATCGCGCAACGCCTGATG
TACGAGAGCTGGCGGCGCAAGGACCTGGAGCGCGCCTACCTGCAGATTCTCGCCGAGGCGCCGGAGGCGGTG
CAGCCGTCGCCCCACGAACAGTGGATGCTGATCGAGAGCCTGCAAGCCATCGACCGCCTGCTCGACGGCCTG
TCCGGGCAGGCCCGCGCGGTGTTCCTGATGAGCCAGCTGGAAGGCCTGACCTACGTGCAGATCGGCGAACGC
CTCGGATTGTCCCTGGGGCGCATCCACCAGTTGATGAAGGATGCCTTGCACTGCTGCTACCGGGGATTCCAG
GAATGA

Translation:

MDSQGSIKNTLIAQLFQQNYDWLCKKLSYQTGCSHSAEDLAAEAFLQVWMLPDPASIRSPRAFLATIAQRLM
YESWRRKDLERAYLQILAEAPEAVQPSPHEQWMLIESLQAIDRLLDGLSGQARAVFLMSQLEGLTYVQIGER
LGLSLGRIHQLMKDALHCCYRGFQE*

AnnotationID:4230 GeneID:4224

AnnotatorUID: diggins

Modification Date/Time: 2005-03-03 07:07:09

Gene Name:

Confidence Code: 3

GeneProduct: putative sigma-70 factor, ECF subfamily

Cell Localization: ()

Synonyms: PA2093

Cell Localization Confidence Code: 5

MolecularFunction:

Functional Category: (24) Transcription, RNA processing and degradation

Alternate Gene Product Name: putative RNA polymerase sigma-70 family protein

Functional Category Confidence Code: 5

COGs: COG1595

Secondary Functional Category(ies): transcriptional regulator

EC Number:

Status: ACTIVE

Pathway:

Homology:

>emb|CAD18000.1| (AL646081) 3-COMPARTIMENT SIGNAL TRANSDUCTION SYSTEM, SIGMA FACTOR
           PRHI TRANSCRIPTION REGULATOR PROTEIN [Ralstonia
           solanacearum]
          Length = 169

 Score =  154 bits (388), Expect = 3e-37
 Identities = 76/149 (51%), Positives = 100/149 (67%)

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

 Score =  133 bits (334), Expect = 5e-31
 Identities = 69/164 (42%), Positives = 105/164 (64%)

Structural Features:

COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues,  87.4% aligned
Score =  102 bits (254), Expect = 3e-23
Identities = 46/159 (28%), Positives = 74/159 (46%), Gaps = 3/159 (1%)

Genomic Context:

Comment:

ReferenceID:8450

Author/Investigator(s): GenNotator

Title:

PubMed:

MedLine:

Source:

Reference Type: BLASTP

Data:

URL:

ReferenceID:25591

Author/Investigator(s): GenNotator

Title: CDD Search

PubMed:

MedLine:

Source:

Reference Type: RPSBLAST

Data:

URL:

ReferenceID:32614

Author/Investigator(s):

Title: CDD Search

PubMed:

MedLine:

Source:

Reference Type: Misc (text/plain)

Data: 4224_cdd.html

URL:

Homologs By Global Alignment

Gene ID:4224

Identity:

10%

20%

30%

40%

50%

60%

70%

80%

90%

100%

HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score

6510 PA2093_tr translation of PA2093 169 99.99 99.99 0 877.0

176985 gb|AAG05481.1|AE004637_1 (AE004637) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1] 169 99.99 99.99 0 877.0

6511 PA2050_tr translation of PA2050 171 52.04 67.83 5 442.0

176986 gb|AAG05438.1|AE004631_7 (AE004631) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1] 171 52.04 67.83 5 442.0

176988 emb|CAD18000.1| (AL646081) 3-COMPARTIMENT SIGNAL TRANSDUCTION SYSTEM, SIGMA FACTOR PRHI TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum] 171 46.78 61.98 4 379.0

GC ORFID: `47226`	How Found: `BLASTX`
GC_TrimmedSeqID: `69`	Blast Result ID
Subject Sequence Name: `t_PA2093`	Glimmer Score:
Start: `1621849`	Stop: `1622358`
Length: `510`
Start Codon: `ATG`	Truncated Start:
Stop Codon: `TGA`	Truncated Stop:
Homolog: `t_PA2093 translation of PA2093`	Homolog Bit Score `342.0`
Other Homologs: `t_PA2050 (ORF: BLASTX 175.0), t_PA0472 (ORF: BLASTX 133.0), psyr_15may02_Scaffold6_revised_gene6627 (ORF: BLASTX 133.0), psyr_15may02_Scaffold3_revised_gene5013 (ORF: BLASTX 126.0), t_PA2468 (ORF: BLASTX 125.0), t_PA3899 (ORF: BLASTX 122.0), t_PA2093 (ORF: GLIMMER)`
GC ORF Sequence
ATGGATAGCCAAGGCTCCATCAAGAACACCCTGATCGCCCAGTTGTTCCAGCAGAACTACGACTGGCTGTGC AAGAAACTGTCCTACCAGACCGGCTGTAGCCACAGCGCCGAAGACCTCGCCGCCGAAGCCTTCCTGCAGGTC TGGATGCTCCCCGACCCGGCGTCGATCCGCTCGCCGCGGGCGTTCCTCGCGACCATCGCGCAACGCCTGATG TACGAGAGCTGGCGGCGCAAGGACCTGGAGCGCGCCTACCTGCAGATTCTCGCCGAGGCGCCGGAGGCGGTG CAGCCGTCGCCCCACGAACAGTGGATGCTGATCGAGAGCCTGCAAGCCATCGACCGCCTGCTCGACGGCCTG TCCGGGCAGGCCCGCGCGGTGTTCCTGATGAGCCAGCTGGAAGGCCTGACCTACGTGCAGATCGGCGAACGC CTCGGATTGTCCCTGGGGCGCATCCACCAGTTGATGAAGGATGCCTTGCACTGCTGCTACCGGGGATTCCAG GAATGA