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[190678_s_at] acyl-coA dehydgrogenase

Description K06A5.6 /REP_DB=WormBase Gene ID /WP=CE11776 /TR=O44549 /GB=AAK21433.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=acyl-coA dehydgrogenase
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 50      4grp_highest_8_8 > 08      4grp_high_8_8 > 53      6grp_highest_nonorm > 26      6grp_total > 51      4grp_total > 59      6grp_highest_sub > 04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3514
1 2 3 4 range
A 4261.1
(0.3)
P 		5791.4
(3)
P 		5437.4
(2.4)
P 		2349
(-3)
P 		3442
B 3883.8
(-0.2)
P 		5125.9
(3)
P 		4946.6
(2.5)
P 		2790.1
(-3)
P 		2336
C 4180.1
(0.9)
P 		5194.1
(3)
P 		5008.9
(2.6)
P 		2277.2
(-3)
P 		2917
avr 4108.3
(0.4) 		5370.5
(3) 		5131
(2.5) 		2472.1
(-3) 		2898

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4581
1 2 3 4 5 6 range
A 5189.6
(-0.6)
P 		5251.8
(-0.5)
P 		7919.5
(3)
P 		7247.1
(2.1)
P 		4608.9
(-1.3)
P 		3338.5
(-3)
P 		4581
B 5932.9
(0.9)
P 		6535.7
(2)
P 		7048.7
(3)
P 		6798.5
(2.5)
P 		4752.2
(-1.3)
P 		3878.3
(-3)
P 		3170
C 4971
(-0.9)
P 		7357.4
(2.5)
P 		7421.1
(2.6)
P 		7700.2
(3)
P 		4633.1
(-1.4)
P 		3538.8
(-3)
P 		4161
avr 5364.5
(-0.2) 		6381.6
(1.3) 		7463.1
(3) 		7248.6
(2.7) 		4664.7
(-1.3) 		3585.2
(-3) 		3878
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1402
1 2 3 4 range
A 1551.5
(3)
P 		1257.1
(1.5)
P 		1421.4
(2.4)
P 		343.9
(-3)
P 		1208
B 1238.5
(2.8)
P 		1266
(3)
P 		1146.2
(1.9)
P 		594.6
(-3)
P 		671
C 1383.7
(1.4)
P 		1493.3
(1.9)
P 		1745.8
(3)
P 		384
(-3)
P 		1362
avr 1391.2
(2.7) 		1338.8
(2.4) 		1437.8
(3) 		440.8
(-3) 		997

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1432
1 2 3 4 5 6 range
A 956.7
(-2.2)
P 		1867.8
(3)
P 		1724.7
(2.2)
P 		1838
(2.8)
P 		1390.8
(0.3)
P 		812.8
(-3)
P 		1055
B 2064.4
(2.1)
P 		2175.4
(3)
P 		1711.6
(-0.8)
P 		1800.7
(-0.1)
P 		1930.8
(1)
P 		1446.2
(-3)
P 		729
C 1842.5
(0.7)
P 		2245
(3)
P 		1888.8
(1)
P 		1548.5
(-0.9)
P 		1499.2
(-1.2)
P 		1184.6
(-3)
P 		1060
avr 1621.2
(-0) 		2096.1
(3) 		1775
(1) 		1729.1
(0.7) 		1606.9
(-0.1) 		1147.9
(-3) 		948
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190678_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.546
Sequence Type Exemplar sequence
Representative Public ID K06A5.6 NCBI
Target Description K06A5.6 /REP_DB=WormBase Gene ID /WP=CE11776 /TR=O44549 /GB=AAK21433.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=acyl-coA dehydgrogenase
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_059458(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059458 NCBI Caenorhabditis elegans K06A5.6 (K06A5.6) mRNA, complete cds. 11/11 None
SNAP00000044597 ENSEMBL cdna:SNAP chromosome:CEL140:I:6472433:6473842:-1 11/11 None
GENEFINDER00000044609 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6472433:6473842:-1 11/11 None
K06A5.6.1 ENSEMBL cdna:known chromosome:CEL140:I:6472335:6473844:-1 gene:K06A5.6 11/11 None
K06A5.6.2 ENSEMBL cdna:known chromosome:CEL140:I:6472381:6475076:-1 gene:K06A5.6 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
chrI:6472361-6473771(-) 100.0 100.0
Public Domain and Genome References
Gene Title acyl-coA dehydgrogenase
Ensembl K06A5.6
Entrez Gene 172351 Entrez gene
SwissProt O44549 EMBL-EBI
WormBase CE11776 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1589106_AT similar to Acyl-CoA dehydrogenase, short/branched chain specific, mitochondrial precursor (SBCAD) (2-methyl branched chain acyl-CoA dehydrogenase) (2-MEBCAD) (2-methylbutyryl-coenzyme A dehydrogenase) (2-methylbutyryl-CoA dehydrogenase)... cfa
CANINE:1584024_AT similar to Acyl-CoA dehydrogenase, short/branched chain specific, mitochondrial precursor (SBCAD) (2-methyl branched chain acyl-CoA dehydrogenase) (2-MEBCAD) (2-methylbutyryl-coenzyme A dehydrogenase) (2-methylbutyryl-CoA dehydrogenase)... cfa
CANINE_2:CFA.10399.1.A1_AT similar to Acyl-CoA dehydrogenase, short/branched chain specific, mitochondrial precursor (SBCAD) (2-methyl branched chain acyl-CoA dehydrogenase) (2-MEBCAD) (2-methylbutyryl-coenzyme A dehydrogenase) (2-methylbutyryl-CoA dehydrogenase)... cfa
CANINE_2:CFA.10399.1.A1_S_AT similar to Acyl-CoA dehydrogenase, short/branched chain specific, mitochondrial precursor (SBCAD) (2-methyl branched chain acyl-CoA dehydrogenase) (2-MEBCAD) (2-methylbutyryl-coenzyme A dehydrogenase) (2-methylbutyryl-CoA dehydrogenase)... cfa
CANINE_2:CFA.14365.1.A1_S_AT similar to Acyl-CoA dehydrogenase, short/branched chain specific, mitochondrial precursor (SBCAD) (2-methyl branched chain acyl-CoA dehydrogenase) (2-MEBCAD) (2-methylbutyryl-coenzyme A dehydrogenase) (2-methylbutyryl-CoA dehydrogenase)... cfa
DROSOPHILA_2:1632980_AT dm
DROSGENOME1:152151_AT dm
HU35KSUBB:RC_R94674_S_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HU35KSUBB:RC_N66066_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HUGENEFL:U12778_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U133A:205355_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U133_PLUS_2:205355_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-FOCUS:205355_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U133A_2:205355_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
U133_X3P:G4501858_3P_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
U133_X3P:HS.11805.0.A1_3P_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U133_PLUS_2:226030_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U133B:226030_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U95AV2:40673_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U95B:48447_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HG-U95B:56518_AT acyl-Coenzyme A dehydrogenase, short/branched chain hs
HU35KSUBA:H47161_AT Acyl-Coenzyme A dehydrogenase, short/branched chain hs
HU35KSUBD:RC_C21030_AT Acyl-Coenzyme A dehydrogenase, short/branched chain hs
MOUSE430A_2:1455446_X_AT acyl-Coenzyme A dehydrogenase, short/branched chain mm
MOE430A:1455446_X_AT acyl-Coenzyme A dehydrogenase, short/branched chain mm
MOUSE430_2:1455446_X_AT acyl-Coenzyme A dehydrogenase, short/branched chain mm
MG-U74BV2:162725_AT acyl-Coenzyme A dehydrogenase, short/branched chain mm
MU19KSUBA:TC17944_AT Acyl-Coenzyme A dehydrogenase, short/branched chain (Acadsb), mRNA mm
MU19KSUBC:TC36566_AT Acyl-Coenzyme A dehydrogenase, short/branched chain (Acadsb), mRNA mm
RT-U34:U64451_AT acyl-Coenzyme A dehydrogenase, short/branched chain rn
RG-U34A:U64451_AT acyl-Coenzyme A dehydrogenase, short/branched chain rn
RAE230A:1369526_AT acyl-Coenzyme A dehydrogenase, short/branched chain rn
RAT230_2:1369526_AT acyl-Coenzyme A dehydrogenase, short/branched chain rn
RAE230A:1371775_AT Acyl-Coenzyme A dehydrogenase, short/branched chain rn
RAT230_2:1371775_AT Acyl-Coenzyme A dehydrogenase, short/branched chain rn
RG-U34C:RC_AI172057_AT Acyl-Coenzyme A dehydrogenase, short/branched chain rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3995 acyl-CoA dehydrogenase activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK21433 Hypothetical protein K06A5.6 [Caenorhabditis elegans] ref|NP_491859.1| K06A5.6 [Caenorhabditis elegans] 0.0
blast CAE67197 Hypothetical protein CBG12633 [Caenorhabditis briggsae] 0.0
Protein Families
Method ID Description E-Value
ec ACDM_DROME (Q9VSA3) Probable acyl-CoA dehydrogenase, medium-chain specific, mitochondrial precursor (EC 1.3.99.3) (MCAD) 1.0E-160
Protein Domains
Database ID Description E-Value
Pfam IPR006090 EMBL-EBI Acyl-CoA dehydrogenase, C-terminal 3.2E-75
Pfam IPR006091 EMBL-EBI Acyl-CoA dehydrogenase, central domain 2.6E-53
Pfam IPR006092 EMBL-EBI Acyl-CoA dehydrogenase, N-terminal 2.3E-35
Sequence
Target Sequence 
>C. ELEGANS:190678_S_AT
gaatcacgtgtttcctggttgacagaaatcaagaaggagtatctgttggaaagaaggaag
acaagctcggaatccgtgcatcttctacatgctccgttcattttgacaacgttcgggtcc
acaagtcgtcaattctgggagaatatggaaaaggatacaaatatgcgatcgagtgcctga
atgctggacgtatcggaatcggagcacaaatgttaggattggctcaaggctgtttcgatc
aaacaattccatatcttcaacaaagagaacagttcgggcagagacttatagatttccagg
gaatgcaacaccaaatcggacaaacacgaatggaaattgaagctgctcgtcttctggtct
acaacgctgctcgcatgaagcagaatggacttccattcgttcgtgaagcagccatggcca
aattgtttgcatcacaagttgccactacagccacttcgaaatgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCACGTGTTTCCTGGTTGACAG 331 327 653 Antisense
GAATCCGTGCATCTTCTACATGCTC 138 331 722 Antisense
GACAACGTTCGGGTCCACAAGTCGT 221 359 757 Antisense
ATATGCGATCGAGTGCCTGAATGCT 96 21 813 Antisense
GTGCCTGAATGCTGGACGTATCGGA 199 477 825 Antisense
GGATTGGCTCAAGGCTGTTTCGATC 662 507 868 Antisense
TCTACAACGCTGCTCGCATGAAGCA 150 613 1010 Antisense
TTCGTTCGTGAAGCAGCCATGGCCA 130 695 1048 Antisense
GCCATGGCCAAATTGTTTGCATCAC 162 279 1063 Antisense
GCATCACAAGTTGCCACTACAGCCA 588 307 1081 Antisense
GCCACTACAGCCACTTCGAAATGTG 44 279 1093 Antisense
Sequence Source Affymetrix Proprietary Database