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[192501_at] 3-hydroxyacyl-CoA dehydrogenase

Description F54C8.1 /REP_DB=WormBase Gene ID /WP=CE00187 /TR=SW:P34439 /GB=CAA80153.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=3-hydroxyacyl-CoA dehydrogenase
Cluster 6grp_total > 55      4grp_total > 45      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 25.4
(-1.1)
A 		57.7
(3)
A 		38.8
(0.6)
A 		9.9
(-3)
A 		48
B 52.3
(2.6)
A 		55.4
(3)
A 		8.3
(-3)
A 		10.8
(-2.7)
A 		47
C 50.4
(3)
A 		10.9
(-2.7)
A 		8.6
(-3)
A 		30.6
(0.2)
A 		42
avr 42.7
(3) 		41.3
(2.7) 		18.6
(-2.6) 		17.1
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 96.8
(-0.2)
A 		111.2
(0.6)
P 		144.4
(2.5)
P 		87.2
(-0.8)
A 		48.2
(-3)
A 		152.9
(3)
P 		105
B 137.4
(0.6)
P 		125.7
(-0.1)
A 		174.4
(3)
P 		81.3
(-3)
A 		152.8
(1.6)
P 		144.9
(1.1)
P 		93
C 103.1
(-0.9)
A 		145.5
(2.2)
A 		149.1
(2.5)
P 		75.4
(-3)
A 		109.4
(-0.5)
P 		156.3
(3)
P 		81
avr 112.4
(-0.5) 		127.5
(0.7) 		156
(3) 		81.3
(-3) 		103.5
(-1.2) 		151.4
(2.6) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 9.2
(1.2)
A 		12.5
(3)
A 		10.1
(1.7)
A 		1.5
(-3)
A 		11
B 16.7
(3)
A 		13.7
(1.8)
A 		1.9
(-3)
A 		2.3
(-2.8)
A 		15
C 16.7
(3)
A 		3.1
(-3)
A 		3
(-3)
A 		5.2
(-2)
A 		14
avr 14.2
(3) 		9.8
(0.6) 		5
(-1.9) 		3
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 17.8
(-2.2)
A 		39.6
(3)
P 		31.5
(1.1)
P 		22.1
(-1.2)
A 		14.5
(-3)
A 		37.2
(2.4)
P 		25
B 47.8
(0.9)
P 		41.9
(0)
A 		42.4
(0.1)
P 		21.5
(-3)
A 		62.1
(3)
P 		54
(1.8)
P 		41
C 38.2
(0.7)
A 		44.4
(1.7)
A 		37.9
(0.7)
P 		15.2
(-3)
A 		35.4
(0.3)
P 		52.3
(3)
P 		37
avr 34.6
(0.2) 		42
(1.8) 		37.3
(0.8) 		19.6
(-3) 		37.3
(0.8) 		47.8
(3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192501_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7868
Sequence Type Exemplar sequence
Representative Public ID F54C8.1 NCBI
Target Description F54C8.1 /REP_DB=WormBase Gene ID /WP=CE00187 /TR=SW:P34439 /GB=CAA80153.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=3-hydroxyacyl-CoA dehydrogenase
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_066674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066674 NCBI Caenorhabditis elegans F54C8.1 (F54C8.1) mRNA, complete cds. 11/11 None
SNAP00000014861 ENSEMBL cdna:SNAP chromosome:CEL140:III:9439803:9440793:1 11/11 None
GENEFINDER00000014871 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9439806:9440793:1 11/11 None
F54C8.1 ENSEMBL cdna:known chromosome:CEL140:III:9439806:9440793:1 gene:F54C8.1 11/11 None
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
chrIII:9439801-9440789(+) 100.0 100.0
Public Domain and Genome References
Gene Title 3-hydroxyacyl-CoA dehydrogenase
Ensembl F54C8.1
Entrez Gene 186222 Entrez gene
SwissProt P34439 EMBL-EBI
WormBase CE00187 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:257052_AT 3-hydroxybutyryl-CoA dehydrogenase, putative at
CANINE_2:CFA.18694.1.S1_AT similar to Short chain 3-hydroxyacyl-CoA dehydrogenase, mitochondrial precursor (HCDH) (Medium and short chain L-3-hydroxyacyl-coenzyme A dehydrogenase) cfa
CANINE_2:CFAAFFX.17485.1.S1_S_AT similar to Short chain 3-hydroxyacyl-CoA dehydrogenase, mitochondrial precursor (HCDH) (Medium and short chain L-3-hydroxyacyl-coenzyme A dehydrogenase) cfa
HG-U133_PLUS_2:201035_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A:201035_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A_2:201035_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133_PLUS_2:201036_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A:201036_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A_2:201036_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133_PLUS_2:211569_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A:211569_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133A_2:211569_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U95AV2:35435_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HUGENEFL:X96752_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
U133_X3P:G2078328_3P_A_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
U133_X3P:G12653080_3P_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U95AV2:38768_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133_PLUS_2:243574_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
HG-U133B:243574_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
U133_X3P:HS.257035.0.A1_3P_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain hs
MOUSE430A_2:1436756_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOE430A:1436756_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOUSE430_2:1436756_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MU11KSUBA:D29639_S_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MG-U74AV2:95485_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOE430A:1455972_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOUSE430A_2:1455972_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOUSE430_2:1455972_X_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOE430A:1460184_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOUSE430A_2:1460184_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
MOUSE430_2:1460184_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain mm
RG-U34B:RC_AA848758_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
RAE230A:1370237_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
RAT230_2:1370237_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
RAE230A:1389922_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
RAT230_2:1389922_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
RG-U34A:RC_AA891362_AT L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6631 fatty acid 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 CAA80153 Hypothetical protein F54C8.1 [Caenorhabditis elegans] ref|NP_499075.1| F54C8.1 [Caenorhabditis elegans] sp|P34439|HCDH1_CAEEL Probable 3-hydroxyacyl-CoA dehydrogenase F54C8.1 1.0E-156
blast CAE65219 Hypothetical protein CBG10094 [Caenorhabditis briggsae] 1.0E-123
blast CAE69821 Hypothetical protein CBG16139 [Caenorhabditis briggsae] 1.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR006108 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, C-terminal 3.8E-50
Pfam IPR006176 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain 9.7E-115
Pfam IPR006108 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, C-terminal 3.8E-50
Pfam IPR006176 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain 9.7E-115
Sequence
Target Sequence 
>C. ELEGANS:192501_AT
tgccgatctgatcatcgaagccgccattgagaacatcgatttgaagcggggaatctttgc
ccaaatcgagcagtcttgcaagaaggattcgattttgaccacgaacacttcatcgttcct
tcttgaggatgtcgccaaaggattgcaagataaaactcgcttcggaggactccacttctt
caatccggtgccagttatgaagcttctcgaggtaattcgatctgatgacacttcggatga
aacatatgcaacgctgatcaagtttggaacagctgttggaaaaacaacagtcgcttgtaa
ggatagtcctggattcattgtcaatcgtctgcttattccatactttttcgaagcagcgag
aatgtatgaacgaggagatgcatcaatgaccgacatcgatgaagccatgaagttgggagc
aggacatccaatgggaccattcgagctggccgactacattggtctcgacacggtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCGATCTGATCATCGAAGCCGCC 684 583 297 Antisense
GAAGCCGCCATTGAGAACATCGATT 224 345 313 Antisense
TTTGCCCAAATCGAGCAGTCTTGCA 290 669 352 Antisense
ACCACGAACACTTCATCGTTCCTTC 105 85 394 Antisense
TCGTTCCTTCTTGAGGATGTCGCCA 248 601 409 Antisense
TAAAACTCGCTTCGGAGGACTCCAC 688 639 447 Antisense
CCGGTGCCAGTTATGAAGCTTCTCG 110 265 481 Antisense
TCAATCGTCTGCTTATTCCATACTT 616 633 617 Antisense
GGGAGCAGGACATCCAATGGGACCA 394 495 711 Antisense
CATTCGAGCTGGCCGACTACATTGG 664 215 734 Antisense
GACTACATTGGTCTCGACACGGTCA 703 371 748 Antisense
Sequence Source Affymetrix Proprietary Database