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[187790_at] E. coli L-carnitine dehydratase

Description C24A3.3 /REP_DB=WormBase Gene ID /WP=CE04060 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:Q18123 protein_id:AAA81458.1
Cluster 6grp_total > 36      4grp_total > 35      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 79.5
(0.8)
A 		97.6
(3)
A 		47.5
(-3)
A 		94.1
(2.6)
A 		50
B 11.6
(-3)
A 		93.5
(3)
A 		21.9
(-2.2)
A 		22.3
(-2.2)
A 		82
C 46.7
(-1.2)
A 		117.8
(3)
A 		16.8
(-3)
A 		78.9
(0.7)
A 		101
avr 45.9
(-1.6) 		103
(3) 		28.7
(-3) 		65.1
(-0.1) 		74

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 60.4
(0.8)
A 		54.2
(0.4)
A 		39.5
(-0.6)
A 		45
(-0.3)
A 		4.3
(-3)
A 		93.6
(3)
A 		89
B 65.5
(2.7)
A 		67.5
(3)
A 		40.9
(-0.3)
A 		62.7
(2.4)
A 		51.9
(1)
A 		19.7
(-3)
A 		48
C 61.4
(-2.1)
A 		108.2
(3)
A 		79.3
(-0.2)
A 		53.5
(-3)
A 		67.2
(-1.5)
A 		65.2
(-1.7)
A 		55
avr 62.4
(0.6) 		76.6
(3) 		53.2
(-1) 		53.7
(-0.9) 		41.1
(-3) 		59.5
(0.1) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 28.9
(3)
A 		21.2
(0.2)
A 		12.4
(-3)
A 		13.8
(-2.5)
A 		17
B 3.7
(-3)
A 		23.1
(3)
A 		5.1
(-2.6)
A 		4.8
(-2.7)
A 		19
C 15.5
(-0.9)
A 		33.9
(3)
A 		5.9
(-3)
A 		13.3
(-1.4)
A 		28
avr 16
(-0.3) 		26.1
(3) 		7.8
(-3) 		10.6
(-2.1) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 11.1
(-0.3)
A 		19.3
(2)
A 		8.6
(-1)
A 		11.4
(-0.2)
A 		1.3
(-3)
A 		22.8
(3)
A 		22
B 22.8
(3)
A 		22.5
(2.9)
A 		9.9
(-2)
A 		16.6
(0.6)
A 		21.1
(2.3)
A 		7.4
(-3)
A 		15
C 22.8
(0.2)
A 		33
(3)
A 		20.2
(-0.5)
A 		10.8
(-3)
A 		21.7
(-0.1)
A 		21.8
(-0)
A 		22
avr 18.9
(-0) 		24.9
(3) 		12.9
(-3) 		12.9
(-3) 		14.7
(-2.1) 		17.3
(-0.8) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187790_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17212
Sequence Type Exemplar sequence
Representative Public ID C24A3.3 NCBI
Target Description C24A3.3 /REP_DB=WormBase Gene ID /WP=CE04060 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:Q18123 protein_id:AAA81458.1
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 
C24A3.4 ENSEMBL cdna:known chromosome:CEL140:X:8992342:8995651:1 gene:C24A3.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000035245 1/11 Cross Hyb Matching Probes None
GENEFINDER00000035255 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:8992958-8995650(+) 93.78 100.0
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-156
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:187790_AT
aagggcaggattgttgcgtgacgcccgttctagatattcatgaagtcggcacgtacggac
aacatgttgatcgtcaaaactttacaaaaaatgacaagtttggtagcacatggatagcaa
aaccttctcctagagtaaagacgccggaggaactgtttgcggcgcggtccaagctgtgtg
aatttatttgttcaaggttgaatttcattagttccacaaacataccactgtcagatccct
gtactcattttcatgttttctatttacagagtgcgcttgaagagactgaagctcgtcaaa
aaaagaagagccaacgatttggtggtagtggtgtgccgcgcgctgggggccattttgttt
cggttcttctctttctttctctctcaacgcatacatacacaaaattttccgacgccaccc
cgttagtcccgtcgcccgtccgccgagtcgttgaggcccccgtcaccctcttctctcaga
atatattgatccctcccgcatcttcttttcggagcaagcttattctccatcgtct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGGGCAGGATTGTTGCGTGACGCC 573 159 416 Antisense
GCGGTCCAAGCTGTGTGAATTTATT 239 293 579 Antisense
AACATACCACTGTCAGATCCCTGTA 153 139 634 Antisense
AGATCCCTGTACTCATTTTCATGTT 378 67 648 Antisense
ATTTGGTGGTAGTGGTGTGCCGCGC 220 9 732 Antisense
TTCTCTCTCAACGCATACATACACA 206 691 792 Antisense
CATACACAAAATTTTCCGACGCCAC 655 211 809 Antisense
TCACCCTCTTCTCTCAGAATATATT 257 627 878 Antisense
TCAGAATATATTGATCCCTCCCGCA 619 623 891 Antisense
CCCGCATCTTCTTTTCGGAGCAAGC 699 259 910 Antisense
GGAGCAAGCTTATTCTCCATCGTCT 21 521 926 Antisense
Sequence Source Affymetrix Proprietary Database