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[190359_at] 4-coumarate-coA ligase

Description C01G6.7 /REP_DB=WormBase Gene ID /WP=CE00869 /TR=Q17577 /GB=CAA84640.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=4-coumarate-coA ligase
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 66      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 89      6grp_total > 58      4grp_total > 08      6grp_highest_sub > Cu      6grp_high1_sub > Da      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2694
1 2 3 4 range
A 768.9
(-2.6)
P 		591.1
(-3)
P 		1382.1
(-1.1)
P 		3142.8
(3)
P 		2552
B 585.4
(-3)
P 		827.9
(-2.5)
P 		1783.2
(-0.3)
P 		3279.4
(3)
P 		2694
C 755.6
(-3)
P 		780.9
(-2.9)
P 		2025.3
(0.1)
P 		3233.7
(3)
P 		2478
avr 703.3
(-3) 		733.3
(-2.9) 		1730.2
(-0.6) 		3218.6
(3) 		2515

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2246
1 2 3 4 5 6 range
A 1410.8
(-0.9)
P 		738.5
(-2.8)
P 		1098.8
(-1.8)
P 		969.8
(-2.2)
P 		674
(-3)
P 		2767.9
(3)
P 		2094
B 1653.1
(-0.4)
P 		697.8
(-3)
P 		1074.1
(-2)
P 		921.2
(-2.4)
P 		869
(-2.5)
P 		2866.4
(3)
P 		2169
C 1425.5
(-0.8)
P 		737.5
(-2.7)
P 		810.5
(-2.5)
P 		1173.4
(-1.5)
P 		620.2
(-3)
P 		2814.1
(3)
P 		2194
avr 1496.5
(-0.8) 		724.6
(-3) 		994.5
(-2.2) 		1021.5
(-2.1) 		721.1
(-3) 		2816.1
(3) 		2095
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 578
1 2 3 4 range
A 279.9
(-0.3)
P 		128.3
(-3)
P 		361.3
(1.2)
P 		460
(3)
P 		332
B 186.7
(-3)
P 		204.5
(-2.8)
P 		413.2
(-0.3)
P 		698.8
(3)
P 		512
C 250.1
(-2.7)
P 		224.5
(-3)
P 		705.9
(3)
P 		545.3
(1)
P 		481
avr 238.9
(-2.2) 		185.8
(-3) 		493.5
(1.8) 		568
(3) 		382

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 868
1 2 3 4 5 6 range
A 260.1
(-2.3)
P 		262.7
(-2.2)
P 		239.3
(-2.5)
P 		246
(-2.5)
P 		203.4
(-3)
P 		673.9
(3)
P 		471
B 575.2
(-0.5)
P 		232.3
(-3)
P 		260.8
(-2.8)
P 		244
(-2.9)
P 		353
(-2.1)
P 		1068.9
(3)
P 		837
C 528.4
(-0.3)
P 		225
(-2.8)
P 		206.3
(-3)
P 		236
(-2.7)
P 		200.7
(-3)
P 		942
(3)
P 		741
avr 454.6
(-1) 		240
(-3) 		235.5
(-3) 		242
(-2.9) 		252.4
(-2.8) 		894.9
(3) 		659
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190359_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2955
Sequence Type Exemplar sequence
Representative Public ID C01G6.7 NCBI
Target Description C01G6.7 /REP_DB=WormBase Gene ID /WP=CE00869 /TR=Q17577 /GB=CAA84640.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=4-coumarate-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_063578(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063578 NCBI Caenorhabditis elegans C01G6.7 (C01G6.7) mRNA, complete cds. 11/11 None
SNAP00000013221 ENSEMBL cdna:SNAP chromosome:CEL140:II:9291930:9293890:1 11/11 None
GENEFINDER00000013248 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9291930:9293890:1 11/11 None
C01G6.7 ENSEMBL cdna:known chromosome:CEL140:II:9291928:9293948:1 gene:C01G6.7 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
chrII:9291926-9293887(+) 100.0 100.0
Public Domain and Genome References
Gene Title 4-coumarate-coA ligase
Ensembl C01G6.7
Entrez Gene 174472 Entrez gene
SwissProt Q17577 EMBL-EBI
WormBase CE00869 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259518_AT 4-coumarate--CoA ligase family protein / 4-coumaroyl-CoA synthase family protein at
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 CAA84640 Hypothetical protein C01G6.7 [Caenorhabditis elegans] ref|NP_495979.1| C01G6.7 [Caenorhabditis elegans] 0.0
blast CAE57848 Hypothetical protein CBG00883 [Caenorhabditis briggsae] 0.0
blast CAE72182 Hypothetical protein CBG19289 [Caenorhabditis briggsae] 1.0E-75
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) 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 3.6E-102
Sequence
Target Sequence 
>C. ELEGANS:190359_AT
gaacttacatttgcaactcatttacaaagtccaggatctccagatggaagtgttggaaga
ttggttcctggaacgagtatgaaagtgaaaaaagaagatggaacactttgtgggcctcat
gaaattggagaactttggattaagggtcctcaaatgatgaaaggatattggaaaaaagaa
caacaaacaaatgaattattagatgaacatggttttatgagaactggagatattgtgtat
tttgataagaacggagaaaccttcatttgtgatagaatcaaagaactcattaaagtaaat
gcaaaacaagtggcacctgctgaactggaatctgtcattttggaacatgatgatgtggca
gatgtatgtgtttttggagtagatgatgctagttcaggagaacgtccagttgcatgtgtt
gtttcaaaaagaggaagagatatggaaacatcaaaagcaatcatgaagcatattaatcag
aagctagccagatacaagcacatcaaggaaattgagtttgttagtgaaataatgcgaacg
gggacaggaaaacttctgcggagggccatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACTTACATTTGCAACTCATTTAC 380 349 1027 Antisense
TACAAAGTCCAGGATCTCCAGATGG 213 643 1049 Antisense
GAACACTTTGTGGGCCTCATGAAAT 615 351 1127 Antisense
GAGAACTTTGGATTAAGGGTCCTCA 617 361 1154 Antisense
GAACGGAGAAACCTTCATTTGTGAT 474 347 1275 Antisense
GCAAAACAAGTGGCACCTGCTGAAC 290 319 1327 Antisense
GGCACCTGCTGAACTGGAATCTGTC 444 535 1338 Antisense
GATGTGGCAGATGTATGTGTTTTTG 346 409 1378 Antisense
ACGTCCAGTTGCATGTGTTGTTTCA 535 95 1428 Antisense
GAAGCTAGCCAGATACAAGCACATC 260 343 1506 Antisense
GGAAAACTTCTGCGGAGGGCCATGA 72 527 1573 Antisense
Sequence Source Affymetrix Proprietary Database