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[192296_at] long-chain fatty-acid CoA ligase

Description T08B1.6 /REP_DB=WormBase Gene ID /WP=CE27444 /TR=O44560 /GB=AAB94180.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=long-chain fatty-acid CoA ligase
Cluster 6grp_high1_10_10 > 96      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_total > 86      4grp_total > 17      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 516
1 2 3 4 range
A 112.9
(-3)
P 		260.3
(-1.3)
P 		165.7
(-2.4)
P 		628.4
(3)
P 		516
B 152.9
(-3)
P 		260.2
(-1.3)
P 		222.4
(-1.9)
P 		538.7
(3)
P 		386
C 137.8
(-3)
P 		227.1
(-1.9)
P 		221.2
(-2)
P 		623.4
(3)
P 		486
avr 134.5
(-3) 		249.2
(-1.5) 		203.1
(-2.1) 		596.8
(3) 		462

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 523
1 2 3 4 5 6 range
A 96.8
(-3)
A 		176.8
(-2)
P 		218.9
(-1.4)
P 		321.3
(-0.1)
P 		280.4
(-0.6)
P 		562.9
(3)
P 		466
B 118.8
(-3)
P 		128.3
(-2.9)
P 		184.8
(-2.2)
P 		282.1
(-1)
P 		307.2
(-0.7)
P 		620
(3)
P 		501
C 141.6
(-3)
P 		175.2
(-2.5)
P 		170.5
(-2.6)
P 		313.8
(-0.4)
P 		282.3
(-0.9)
P 		537.1
(3)
P 		396
avr 119.1
(-3) 		160.1
(-2.5) 		191.4
(-2) 		305.7
(-0.5) 		290
(-0.7) 		573.3
(3) 		454
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 41.1
(-3)
P 		56.5
(-1.2)
P 		43.3
(-2.7)
P 		92
(3)
P 		51
B 48.8
(-3)
P 		64.3
(-1.6)
P 		51.5
(-2.8)
P 		114.8
(3)
P 		66
C 45.6
(-3)
P 		65.3
(-1)
P 		77.1
(0.2)
P 		105.1
(3)
P 		60
avr 45.2
(-3) 		62
(-1.3) 		57.3
(-1.8) 		104
(3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 17.8
(-3)
A 		62.9
(-0.7)
P 		47.7
(-1.5)
P 		81.5
(0.2)
P 		84.6
(0.4)
P 		137
(3)
P 		119
B 41.3
(-3)
P 		42.7
(-3)
P 		44.9
(-2.9)
P 		74.7
(-1.9)
P 		124.8
(-0.4)
P 		231.2
(3)
P 		190
C 52.5
(-2.6)
P 		53.5
(-2.6)
P 		43.4
(-3)
P 		63.1
(-2.1)
P 		91.3
(-0.9)
P 		179.8
(3)
P 		136
avr 37.2
(-3) 		53
(-2.3) 		45.3
(-2.7) 		73.1
(-1.5) 		100.2
(-0.4) 		182.7
(3) 		146
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192296_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15290
Sequence Type Exemplar sequence
Representative Public ID T08B1.6 NCBI
Target Description T08B1.6 /REP_DB=WormBase Gene ID /WP=CE27444 /TR=O44560 /GB=AAB94180.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=long-chain fatty-acid CoA ligase
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_071139(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071139 NCBI Caenorhabditis elegans T08B1.6 (T08B1.6) mRNA, complete cds. 11/11 None
SNAP00000025788 ENSEMBL cdna:SNAP chromosome:CEL140:V:1969581:1976647:1 11/11 None
GENEFINDER00000025796 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1969384:1977093:1 11/11 None
T08B1.6 ENSEMBL cdna:known chromosome:CEL140:V:1969369:1974275:1 gene:T08B1.6 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
chrV:1969368-1974218(+) 100.0 100.0
Public Domain and Genome References
Gene Title long-chain fatty-acid CoA ligase
Ensembl T08B1.6
Entrez Gene 178677 Entrez gene
SwissProt O44560 EMBL-EBI
WormBase CE27444 Wormbase
Functional Annotations
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
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB94180 Hypothetical protein T08B1.6 [Caenorhabditis elegans] ref|NP_503540.1| T08B1.6 [Caenorhabditis elegans] 0.0
blast CAE66776 Hypothetical protein CBG12133 [Caenorhabditis briggsae] 0.0
blast AAH43756 Facl2-prov protein [Xenopus laevis] 1.0E-108
Protein Families
Method ID Description E-Value
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 3.0E-85
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 9.0E-28
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 4.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 4.2E-24
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.9E-46
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.2E-75
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 4.2E-24
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.9E-46
Sequence
Target Sequence 
>C. ELEGANS:192296_AT
gttaagctggtggatgttccggagaagaattatttttcaatgaatgatgaaggagaggtg
tgcttccgtggaaatgcgatgatgactggatactttcaagatcctgaattaaccgcaaaa
accatcgattcggaaggttggctccacactggagatatcggaaaatggcttccaaccggc
ggcctccaaatcatagatcgcaaaaacgagatgttcaagctcagccaaggagattttgta
tcgccaattcaaatcgaagcaatctacgcaaattccccgcttatcactcaaatatatgtc
accggaaaaactgaacgatcgtttttagttggaattgtggttctagacttgccacgattc
aagcaacttccgctggtgaaggcgttggacgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTAAGCTGGTGGATGTTCCGGAGA 80 447 1333 Antisense
AAGGAGAGGTGTGCTTCCGTGGAAA 142 161 1382 Antisense
CGATTCGGAAGGTTGGCTCCACACT 406 247 1458 Antisense
TCGGAAAATGGCTTCCAACCGGCGG 561 603 1490 Antisense
GGCGGCCTCCAAATCATAGATCGCA 450 539 1510 Antisense
AACGAGATGTTCAAGCTCAGCCAAG 70 145 1537 Antisense
TCGAAGCAATCTACGCAAATTCCCC 379 601 1586 Antisense
TTCCCCGCTTATCACTCAAATATAT 85 699 1605 Antisense
TGGTTCTAGACTTGCCACGATTCAA 136 549 1670 Antisense
CACGATTCAAGCAACTTCCGCTGGT 75 201 1685 Antisense
TTCCGCTGGTGAAGGCGTTGGACGG 550 697 1700 Antisense
Sequence Source Affymetrix Proprietary Database