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[189731_at] AMP-binding enzymes

Description F25C8.4 /REP_DB=WormBase Gene ID /WP=CE18637 /TR=Q9XV68 /GB=CAB04170.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=AMP-binding enzymes
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 65      4grp_highest_8_8 > 52      4grp_high_8_8 > 24      6grp_highest_nonorm > 85      6grp_total > 65      4grp_total > 39      6grp_highest_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 308
1 2 3 4 range
A 717.8
(3)
P 		476.8
(-2.7)
P 		462.7
(-3)
P 		562.6
(-0.7)
P 		255
B 750.9
(3)
P 		517.1
(-1.8)
P 		459.1
(-3)
P 		588.8
(-0.3)
P 		292
C 766.9
(3)
P 		509.6
(-3)
P 		568.3
(-1.6)
P 		556.2
(-1.9)
P 		257
avr 745.2
(3) 		501.2
(-2.9) 		496.7
(-3) 		569.2
(-1.2) 		249

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 406
1 2 3 4 5 6 range
A 905.6
(2.5)
P 		563.7
(-3)
P 		801.4
(0.8)
P 		802.9
(0.8)
P 		683.3
(-1.1)
P 		937.3
(3)
P 		374
B 801.8
(1.7)
P 		587.4
(-2)
P 		734
(0.5)
P 		879.2
(3)
P 		531.6
(-3)
P 		852.4
(2.5)
P 		348
C 611
(-2.3)
P 		600.1
(-2.6)
P 		815.8
(1.7)
P 		881.3
(3)
P 		577.4
(-3)
P 		881.5
(3)
P 		304
avr 772.8
(0.7) 		583.7
(-3) 		783.7
(0.9) 		854.5
(2.3) 		597.4
(-2.7) 		890.4
(3) 		307
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 261.3
(3)
P 		103.5
(-2.3)
P 		121
(-1.7)
P 		82.3
(-3)
P 		179
B 239.4
(3)
P 		127.7
(-2)
P 		106.4
(-3)
P 		125.5
(-2.1)
P 		133
C 253.9
(3)
P 		146.5
(-1)
P 		198.1
(0.9)
P 		93.8
(-3)
P 		160
avr 251.5
(3) 		125.9
(-2) 		141.8
(-1.4) 		100.5
(-3) 		151

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 151
1 2 3 4 5 6 range
A 166.9
(-3)
P 		200.5
(0.3)
P 		174.5
(-2.3)
P 		203.6
(0.6)
P 		206.2
(0.8)
P 		228.2
(3)
P 		61
B 279
(1.3)
P 		195.5
(-2.3)
P 		178.2
(-3)
P 		232.9
(-0.7)
P 		216
(-1.4)
P 		317.9
(3)
P 		140
C 226.5
(-0.5)
P 		183.1
(-2.7)
P 		207.6
(-1.5)
P 		177.2
(-3)
P 		186.8
(-2.5)
P 		295.1
(3)
P 		118
avr 224.1
(-0.6) 		193
(-2.6) 		186.8
(-3) 		204.6
(-1.9) 		203
(-2) 		280.4
(3) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189731_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12919
Sequence Type Exemplar sequence
Representative Public ID F25C8.4 NCBI
Target Description F25C8.4 /REP_DB=WormBase Gene ID /WP=CE18637 /TR=Q9XV68 /GB=CAB04170.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=AMP-binding enzymes
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_075634(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075634 NCBI Caenorhabditis elegans F25C8.4 (F25C8.4) mRNA, complete cds. 11/11 None
SNAP00000010151 ENSEMBL cdna:SNAP chromosome:CEL140:V:20902226:20905384:1 11/11 None
GENEFINDER00000010158 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20900889:20905384:1 11/11 None
F25C8.4 ENSEMBL cdna:known chromosome:CEL140:V:20902028:20905422:1 gene:F25C8.4 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:20902225-20905384(+) 99.88 100.0
Public Domain and Genome References
Gene Title AMP-binding enzymes
Ensembl F25C8.4
Entrez Gene 180375 Entrez gene
SwissProt Q9XV68 EMBL-EBI
WormBase CE18637 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 CAB04170 Hypothetical protein F25C8.4 [Caenorhabditis elegans] ref|NP_508035.1| F25C8.4 [Caenorhabditis elegans] 0.0
blast CAE61625 Hypothetical protein CBG05551 [Caenorhabditis briggsae] 0.0
blast CAB04170 Hypothetical protein F25C8.4 [Caenorhabditis elegans] ref|NP_508035.1| F25C8.4 [Caenorhabditis elegans] 1.0E-154
blast CAE61625 Hypothetical protein CBG05551 [Caenorhabditis briggsae] 1.0E-126
blast AAL98709 4-coumarate:coenzyme A ligase [Glycine max] 7.0E-65
blast AAL98709 4-coumarate:coenzyme A ligase [Glycine max] 8.0E-65
Protein Families
Method ID Description E-Value
ec AC2L_HUMAN (Q9NUB1) Acetyl-coenzyme A synthetase 2-like, mitochondrial precursor (EC 6.2.1.1) (Acetate--CoA ligase 2) (Acetyl-CoA synthetase 2) 1.0E-126
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-165
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-166
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 7.2E-81
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.4E-17
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.8E-47
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 7.2E-81
Sequence
Target Sequence 
>C. ELEGANS:189731_AT
tattcaccatcctgcgggcagttaacagcaaatctggaaatgaaagttttggacatctta
actggaaaagagttgggacccagagaaaaaggacaaatttgcgttaaaggaatagctgca
gaaagcccgtatttaaacaatccaaaagcaacagaagagcactttctggatggttggagg
agaactggagatattggattctttgatgaagaaggaaatgttcacttggtggataagctg
aaagaaatgataaaagtgttcggatatcaagtgattcccaaggagatagaaacactttta
ctcactcatcaagctgtagaggaagctgcagttgttgcaatcaacaatgaattgagtgga
gagagacctgttgcatttgtggtattgaaaaaaggatttgtggcaaccgaagacgattta
aaggattacgttaacaaacgagttatccgatacaaacatttggtccgcgtgaatatcacc
caattccttccaaaatccgcatgcggtactctacttcgtcgtctattagcagaagctgca
gtaatgtcagtcgcttctattgccgaggtagaaaaagaatttgtgccagaactccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTCACCATCCTGCGGGCAGTTAA 519 661 1039 Antisense
GAATAGCTGCAGAAAGCCCGTATTT 578 325 1148 Antisense
AGAGCACTTTCTGGATGGTTGGAGG 34 63 1194 Antisense
ACACTTTTACTCACTCATCAAGCTG 192 109 1330 Antisense
GTGGAGAGAGACCTGTTGCATTTGT 304 491 1394 Antisense
GGTCCGCGTGAATATCACCCAATTC 224 503 1500 Antisense
TTCCTTCCAAAATCCGCATGCGGTA 633 699 1522 Antisense
TACTCTACTTCGTCGTCTATTAGCA 55 647 1545 Antisense
GCTGCAGTAATGTCAGTCGCTTCTA 66 297 1573 Antisense
TCAGTCGCTTCTATTGCCGAGGTAG 449 621 1585 Antisense
AAAAGAATTTGTGCCAGAACTCCCA 132 133 1611 Antisense
Sequence Source Affymetrix Proprietary Database