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[180260_at]

Description C04E6.5 /REP_DB=WormBase Gene ID /WP=CE27053 /TR=O01467 /GB=AAK39149.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 78      4grp_total > 0      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 3.3
(-2.9)
A 		3.8
(-2.5)
A 		3.2
(-3)
A 		10.6
(3)
A 		7
B 3.8
(-2.6)
A 		3.4
(-3)
A 		10.2
(3)
A 		3.5
(-2.9)
A 		7
C 5.5
(3)
A 		3.4
(-1.5)
A 		2.7
(-3)
A 		5.5
(3)
A 		3
avr 4.2
(-1.6) 		3.5
(-3) 		5.4
(0.8) 		6.5
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 7.5
(-2.2)
A 		4.5
(-2.9)
A 		9
(-1.9)
A 		4.2
(-3)
A 		21.7
(1.2)
A 		29.3
(3)
A 		25
B 4.4
(-3)
A 		10
(-2.5)
A 		32.1
(-0.3)
A 		4.5
(-3)
A 		10.7
(-2.4)
A 		66.3
(3)
A 		62
C 28.9
(-0.5)
A 		4.7
(-2.8)
A 		2.4
(-3)
A 		5.9
(-2.7)
A 		37.1
(0.3)
A 		66.4
(3)
A 		64
avr 13.6
(-1.9) 		6.4
(-2.8) 		14.5
(-1.8) 		4.9
(-3) 		23.2
(-0.8) 		54
(3) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 1.2
(-0)
A 		0.8
(-3)
A 		0.8
(-3)
A 		1.6
(3)
A 		1
B 1.2
(-1.2)
A 		0.8
(-2.6)
A 		2.4
(3)
A 		0.7
(-3)
A 		2
C 1.8
(3)
A 		1
(-2.3)
A 		0.9
(-3)
A 		0.9
(-3)
A 		1
avr 1.4
(3) 		0.9
(-3) 		1.4
(3) 		1.1
(-0.6) 		0

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 1.4
(-2.7)
A 		1.6
(-2.5)
A 		2
(-2.1)
A 		1.1
(-3)
A 		6.5
(2.4)
A 		7.1
(3)
A 		6
B 1.5
(-2.9)
A 		3.3
(-2.5)
A 		7.8
(-1.3)
A 		1.2
(-3)
A 		4.3
(-2.2)
A 		24.7
(3)
A 		24
C 10.7
(-0.2)
A 		1.4
(-2.8)
A 		0.6
(-3)
A 		1.2
(-2.8)
A 		12
(0.2)
A 		22.2
(3)
A 		22
avr 4.5
(-1.8) 		2.1
(-2.7) 		3.5
(-2.2) 		1.2
(-3) 		7.6
(-0.7) 		18
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180260_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11870
Sequence Type Exemplar sequence
Representative Public ID C04E6.5 NCBI
Target Description C04E6.5 /REP_DB=WormBase Gene ID /WP=CE27053 /TR=O01467 /GB=AAK39149.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_072136(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072136 NCBI Caenorhabditis elegans C04E6.5 (C04E6.5) mRNA, complete cds. 11/11 None
SNAP00000001266 ENSEMBL cdna:SNAP chromosome:CEL140:V:5904842:5907425:1 11/11 None
GENEFINDER00000001280 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5904842:5907425:1 11/11 None
C04E6.5 ENSEMBL cdna:known chromosome:CEL140:V:5904806:5907425:1 gene:C04E6.5 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:5904841-5907425(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C04E6.5
Entrez Gene 178977 Entrez gene
SwissProt O01467 EMBL-EBI
WormBase CE27053 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6511 ubiquitin-dependent protein catabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4197 cysteine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
4221 ubiquitin thiolesterase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK39149 Hypothetical protein C04E6.5 [Caenorhabditis elegans] ref|NP_504537.1| C04E6.5 [Caenorhabditis elegans] 0.0
blast T25509 hypothetical protein C04E6.5 - Caenorhabditis elegans 0.0
blast CAA98471 Hypothetical protein F38B7.5 [Caenorhabditis elegans] ref|NP_505931.2| Deubiquitylating with USP/UBP and OTU domains family member (duo-1) [Caenorhabditis elegans] dbj|BAC22611.1| ubiquitin-specific protease [Caenorhabditis elegans] 1.0E-67
Protein Domains
Database ID Description E-Value
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 2.3E-120
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 7.3E-114
Sequence
Target Sequence 
>C. ELEGANS:180260_AT
aattgctatcgtcatcgttctctacatggacgccaatcgagaagaaatgctcatcgtgca
accaccaacatgcaattctgagcgaacgaattacgagatttccagaatgcttagtcatta
acctcgaaagatatcaactcgagggacctcaattttctacaaaaaagatcaattgctcct
tggaaccatcatttgaacttgatatttcgtcgttacaaaagtttcctgaaattgagaaaa
atggcttggagcaatcagagaagcaacaagactctcaatatggacagttacttgatagaa
tgaaatcctgcgagatcataaagtgttgtgaaacaaaaaatattatcatggaagagaaac
atgacaagtattcactcgttgctgccatttgccatcttggcgaaacaccgacaaatggac
actacatagcctacacaagagaagatacggaaaattcttggctctattgctcggatgacc
ttattcggcctgcaacaagatctgagatatccttgtctattcgaacttct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTGCTATCGTCATCGTTCTCTAC 689 177 998 Antisense
CGTTCTCTACATGGACGCCAATCGA 603 247 1013 Antisense
CTCATCGTGCAACCACCAACATGCA 425 229 1047 Antisense
TCGAGGGACCTCAATTTTCTACAAA 368 601 1136 Antisense
GATCAATTGCTCCTTGGAACCATCA 6 423 1164 Antisense
TGACAAGTATTCACTCGTTGCTGCC 589 571 1359 Antisense
TTGCTGCCATTTGCCATCTTGGCGA 31 703 1376 Antisense
GGAAAATTCTTGGCTCTATTGCTCG 636 527 1446 Antisense
ATTGCTCGGATGACCTTATTCGGCC 664 5 1463 Antisense
ATTCGGCCTGCAACAAGATCTGAGA 222 11 1480 Antisense
GATATCCTTGTCTATTCGAACTTCT 657 425 1503 Antisense
Sequence Source Affymetrix Proprietary Database