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[192274_at] E. coli L-carnitine dehydratase

Description C24A3.4 /REP_DB=WormBase Gene ID /WP=CE27725 /TR=Q18122 /GB=AAA81458.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=E. coli L-carnitine dehydratase
Cluster 4grp_high_8_8 > 30      6grp_total > 68      4grp_total > 09      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 81.2
(-3)
A 		141.9
(2.4)
P 		92.8
(-2)
A 		148.4
(3)
M 		67
B 81.9
(-2.7)
P 		76.7
(-3)
A 		110.6
(-1.1)
A 		181.1
(3)
P 		104
C 144.9
(-0.7)
A 		126.3
(-3)
P 		132.2
(-2.3)
P 		174
(3)
P 		48
avr 102.7
(-3) 		115
(-1.9) 		111.9
(-2.2) 		167.8
(3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 171
1 2 3 4 5 6 range
A 133.4
(-1.1)
P 		97.1
(-2.6)
P 		87.7
(-3)
A 		147.1
(-0.6)
P 		137.3
(-1)
P 		233.6
(3)
P 		146
B 113.9
(-2.4)
P 		102.3
(-3)
M 		113.4
(-2.4)
A 		124.6
(-1.8)
A 		138.5
(-1)
P 		211
(3)
P 		109
C 154
(2.5)
P 		104.4
(-0.5)
A 		87.5
(-1.5)
A 		62.8
(-3)
A 		107.1
(-0.3)
A 		161.7
(3)
P 		99
avr 133.8
(-0.9) 		101.3
(-2.7) 		96.2
(-3) 		111.5
(-2.1) 		127.6
(-1.2) 		202.1
(3) 		106
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 29.6
(2.2)
A 		30.8
(3)
P 		24.3
(-1.3)
A 		21.7
(-3)
M 		9
B 26.1
(-0.8)
P 		18.9
(-3)
A 		25.6
(-1)
A 		38.6
(3)
P 		20
C 48
(3)
A 		36.3
(-0.8)
P 		46.1
(2.4)
P 		29.3
(-3)
P 		19
avr 34.6
(3) 		28.7
(-3) 		32
(0.4) 		29.9
(-1.8) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 24.6
(-2.1)
P 		34.5
(-0.6)
P 		19.1
(-3)
A 		37.3
(-0.1)
P 		41.4
(0.5)
P 		56.9
(3)
P 		38
B 39.6
(-1.6)
P 		34.1
(-2.2)
M 		27.5
(-3)
A 		33
(-2.4)
A 		56.3
(0.4)
P 		78.7
(3)
P 		51
C 57.1
(3)
P 		31.9
(-0.4)
A 		22.3
(-1.7)
A 		12.6
(-3)
A 		34.7
(-0)
A 		54.1
(2.6)
P 		45
avr 40.4
(-0.4) 		33.5
(-1.4) 		23
(-3) 		27.6
(-2.3) 		44.1
(0.1) 		63.2
(3) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192274_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17079
Sequence Type Exemplar sequence
Representative Public ID C24A3.4 NCBI
Target Description C24A3.4 /REP_DB=WormBase Gene ID /WP=CE27725 /TR=Q18122 /GB=AAA81458.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=E. coli L-carnitine dehydratase
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077116(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077116 NCBI Caenorhabditis elegans C24A3.4 (C24A3.4) mRNA, complete cds. 11/11 A 
SNAP00000035245 ENSEMBL cdna:SNAP chromosome:CEL140:X:8992342:8994597:1 11/11 None
GENEFINDER00000035255 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8992342:8994597:1 11/11 None
C24A3.4 ENSEMBL cdna:known chromosome:CEL140:X:8992342:8995651:1 gene:C24A3.4 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:8992340-8992896(+) 100.0 100.0
Public Domain and Genome References
Gene Title E. coli L-carnitine dehydratase
Ensembl C24A3.4
Entrez Gene 181140 Entrez gene
SwissProt Q18122 EMBL-EBI
WormBase CE27725 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1601176_AT similar to Alpha-methylacyl-CoA racemase (2-methylacyl-CoA racemase) cfa
CANINE_2:CFAAFFX.28750.1.S1_S_AT similar to Alpha-methylacyl-CoA racemase (2-methylacyl-CoA racemase) cfa
DROSOPHILA_2:1635645_AT dm
DROSGENOME1:152367_AT dm
CHICKEN:GGAAFFX.11974.1.S1_AT alpha-methylacyl-CoA racemase gga
CHICKEN:GGAAFFX.2077.1.S1_S_AT alpha-methylacyl-CoA racemase gga
HG-U133_PLUS_2:217111_AT alpha-methylacyl-CoA racemase hs
HG-U133A_2:217111_AT alpha-methylacyl-CoA racemase hs
HG-U133A:217111_AT alpha-methylacyl-CoA racemase hs
HG-U133A:209426_S_AT alpha-methylacyl-CoA racemase hs
HG-U133_PLUS_2:209426_S_AT alpha-methylacyl-CoA racemase hs
HG-U133A_2:209426_S_AT alpha-methylacyl-CoA racemase hs
HG-FOCUS:209426_S_AT alpha-methylacyl-CoA racemase hs
HU35KSUBD:RC_AA453310_AT alpha-methylacyl-CoA racemase hs
U133_X3P:G4204096_3P_A_AT alpha-methylacyl-CoA racemase hs
U133_X3P:HS.128749.1.S1_3P_X_AT alpha-methylacyl-CoA racemase hs
U133_X3P:HS.128749.1.S1_3P_AT alpha-methylacyl-CoA racemase hs
U133_X3P:HS.128749.0.S3_3P_X_AT alpha-methylacyl-CoA racemase hs
U133_X3P:HS.128749.0.S3_3P_AT alpha-methylacyl-CoA racemase hs
U133_X3P:HS.128749.0.S1_3P_A_AT alpha-methylacyl-CoA racemase hs
HG-U133A_2:209424_S_AT alpha-methylacyl-CoA racemase hs
HG-U133_PLUS_2:209424_S_AT alpha-methylacyl-CoA racemase hs
HG-U133A:209424_S_AT alpha-methylacyl-CoA racemase hs
HG-U133A_2:209425_AT alpha-methylacyl-CoA racemase hs
HG-U133_PLUS_2:209425_AT alpha-methylacyl-CoA racemase hs
HG-U133A:209425_AT alpha-methylacyl-CoA racemase hs
HG-U95AV2:41706_AT alpha-methylacyl-CoA racemase hs
HG-U95D:83041_AT alpha-methylacyl-CoA racemase hs
HG-U133A_2:217113_AT alpha-methylacyl-CoA racemase hs
HG-U133_PLUS_2:217113_AT alpha-methylacyl-CoA racemase hs
HG-U133A:217113_AT alpha-methylacyl-CoA racemase hs
HG-U133_PLUS_2:236365_AT Alpha-methylacyl-CoA racemase hs
HG-U133B:236365_AT Alpha-methylacyl-CoA racemase hs
HG-U95C:56822_AT Alpha-methylacyl-CoA racemase hs
HU35KSUBC:RC_N69017_AT Alpha-methylacyl-CoA racemase hs
U133_X3P:HS.49598.0.A1_3P_AT Alpha-methylacyl-CoA racemase hs
MU11KSUBA:U89906_S_AT alpha-methylacyl-CoA racemase mm
MG-U74AV2:95588_AT alpha-methylacyl-CoA racemase mm
MOE430A:1417208_AT alpha-methylacyl-CoA racemase mm
MOUSE430A_2:1417208_AT alpha-methylacyl-CoA racemase mm
MOUSE430_2:1417208_AT alpha-methylacyl-CoA racemase mm
RG-U34A:U89905_AT alpha-methylacyl-CoA racemase rn
RAE230A:1367775_AT alpha-methylacyl-CoA racemase rn
RAT230_2:1367775_AT alpha-methylacyl-CoA racemase rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81458 Hypothetical protein C24A3.4 [Caenorhabditis elegans] ref|NP_509517.1| C24A3.4 [Caenorhabditis elegans] 0.0
blast CAE57310 Hypothetical protein CBG00232 [Caenorhabditis briggsae] 0.0
blast CAA88571 Hypothetical protein ZK892.4 [Caenorhabditis elegans] ref|NP_496163.2| ZK892.4 [Caenorhabditis elegans] sp|Q09618|YS74_CAEEL Hypothetical protein ZK892.4 in chromosome III 1.0E-157
Protein Domains
Database ID Description E-Value
Pfam IPR003673 EMBL-EBI L-carnitine dehydratase/bile acid-inducible protein F 5.9E-82
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509517.1 1 458-480
C24A3.4 1 458-480
Sequence
Target Sequence 
>C. ELEGANS:192274_AT
atgtcacgtcttttatccggaattaaagttgtcgagcttggtggccttgctccagttcct
ttttgcggcatgattcttgcagattttggagccgatgttactgttattgataagaaaaac
ccaacagtcgaacaaaggatgaatcgtggaaagtcgatgaaggaatttgatttgagaaaa
tctgaagatataaaaaaggttcgcgacctctgccgtaccagtgatgttctacttgatcca
tatcggccaggaacccttgagaaaatgggattagatccgctatcattatggaatgacaat
aaaggacttatcatctgtagaatcagtgggtatggtcaaacgggaagaatgagtcaagaa
gccggtcatgatattaattacgtgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCACGTCTTTTATCCGGAATTA 84 47 13 Antisense
AAAGTTGTCGAGCTTGGTGGCCTTG 154 121 37 Antisense
TCCAGTTCCTTTTTGCGGCATGATT 178 591 63 Antisense
TAAAAAAGGTTCGCGACCTCTGCCG 52 639 203 Antisense
CCTCTGCCGTACCAGTGATGTTCTA 82 267 219 Antisense
GATGTTCTACTTGATCCATATCGGC 44 411 235 Antisense
CCATATCGGCCAGGAACCCTTGAGA 330 269 250 Antisense
GGGATTAGATCCGCTATCATTATGG 141 497 279 Antisense
AAAGGACTTATCATCTGTAGAATCA 84 121 313 Antisense
GAATCAGTGGGTATGGTCAAACGGG 385 1 332 Antisense
GCCGGTCATGATATTAATTACGTGG 3 285 373 Antisense
Sequence Source Affymetrix Proprietary Database