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[192889_at] ubiquitin caroboxyl-terminal hydrolase

Description K09A9.4 /REP_DB=WormBase Gene ID /WP=CE11978 /TR=Q93875 /GB=CAB01885.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=ubiquitin caroboxyl-terminal hydrolase
Cluster 6grp_total > 26      4grp_total > 07      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 117.2
(3)
A 		37.3
(-3)
A 		111.7
(2.6)
A 		99
(1.6)
A 		80
B 94
(0.3)
A 		72.9
(-2.6)
A 		69.9
(-3)
A 		113.7
(3)
A 		44
C 87.2
(-0.1)
A 		99.3
(3)
A 		82.9
(-1.2)
A 		75.6
(-3)
A 		24
avr 99.5
(3) 		69.8
(-3) 		88.2
(0.7) 		96.1
(2.3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 114
1 2 3 4 5 6 range
A 148.7
(3)
A 		122.8
(1.4)
A 		54.4
(-2.7)
A 		103.6
(0.3)
A 		62.5
(-2.2)
A 		48.7
(-3)
A 		100
B 137.9
(3)
A 		120.6
(2)
A 		78.1
(-0.5)
A 		34.7
(-3)
A 		45
(-2.4)
A 		93.2
(0.4)
A 		103
C 100
(1)
A 		87.4
(-0.3)
A 		69.4
(-2.1)
A 		120.1
(3)
A 		60.4
(-3)
A 		82.6
(-0.8)
A 		60
avr 128.9
(3) 		110.3
(1.5) 		67.3
(-2.1) 		86.1
(-0.5) 		56
(-3) 		74.8
(-1.5) 		73
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 42.7
(3)
A 		8.1
(-3)
A 		29.2
(0.7)
A 		14.5
(-1.9)
A 		35
B 30
(3)
A 		18
(-2.2)
A 		16.2
(-3)
A 		24.2
(0.5)
A 		14
C 28.9
(3)
A 		28.6
(2.9)
A 		28.9
(3)
A 		12.8
(-3)
A 		16
avr 33.9
(3) 		18.2
(-2.6) 		24.8
(-0.3) 		17.2
(-3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 27.4
(-0.1)
A 		43.7
(3)
A 		11.8
(-3)
A 		26.3
(-0.3)
A 		18.9
(-1.7)
A 		11.8
(-3)
A 		32
B 48
(3)
A 		40.1
(1.8)
A 		19
(-1.5)
A 		9.2
(-3)
A 		18.3
(-1.6)
A 		34.7
(0.9)
A 		39
C 37.1
(3)
A 		26.7
(-0.2)
A 		17.7
(-3)
A 		24.2
(-1)
A 		19.6
(-2.4)
A 		27.6
(0.1)
A 		19
avr 37.5
(3) 		36.8
(2.8) 		16.2
(-3) 		19.9
(-2) 		18.9
(-2.2) 		24.7
(-0.6) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192889_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17312
Sequence Type Exemplar sequence
Representative Public ID K09A9.4 NCBI
Target Description K09A9.4 /REP_DB=WormBase Gene ID /WP=CE11978 /TR=Q93875 /GB=CAB01885.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=ubiquitin caroboxyl-terminal hydrolase
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_078169(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078169 NCBI Caenorhabditis elegans K09A9.4 (K09A9.4) mRNA, complete cds. 9/11 None
SNAP00000037621 ENSEMBL cdna:SNAP chromosome:CEL140:X:15591287:15593897:1 9/11 None
GENEFINDER00000037628 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15591287:15595073:1 9/11 None
K09A9.4.2 ENSEMBL cdna:known chromosome:CEL140:X:15591285:15595269:1 gene:K09A9.4 9/11 None
K09A9.4.1 ENSEMBL cdna:known chromosome:CEL140:X:15591286:15595525:1 gene:K09A9.4 9/11 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
chrX:15591286-15594163(+) 90.95 100.0
Public Domain and Genome References
Gene Title ubiquitin caroboxyl-terminal hydrolase
Ensembl K09A9.4
Entrez Gene 181647 Entrez gene
SwissProt Q93875 EMBL-EBI
WormBase CE31559 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
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
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01885 Hypothetical protein K09A9.4 [Caenorhabditis elegans] ref|NP_510570.2| K09A9.4 [Caenorhabditis elegans] 0.0
blast CAE63331 Hypothetical protein CBG07731 [Caenorhabditis briggsae] 1.0E-141
Protein Domains
Database ID Description E-Value
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 1.7E-97
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 3.6E-79
Sequence
Target Sequence 
>C. ELEGANS:192889_AT
caccatgcacctcatcaaacattgaagacggacaggaccccggatttcttgttcatcagg
gagcgttcaacaagactagtctagagtcgtgtcttgacagattctttcaaaattccacgc
tacaagatgataatcaatattcctgcagtaaatgtgaagttcttgtcgatgccaccaaat
caacaaaagctcaccggttaccggaagtgatcatcatccagctgaaacgcttccgccaca
caatgttcggatcttgcaaagtgggaaaggtggtcgagttcccgttgcggagccaagatt
ttggtcggtggacgacaagtggcgagccagcattgtatgatttggttggatttgtggtcc
atgaaggaagaagcctcgagtttgggcattatgtctcatattgtagacacgaacaggata
atcagtgcggccgacacgttcggggttctgaaacttggcgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCATGCACCTCATCAAACATTGA 126 201 1103 Antisense
TGAAGACGGACAGGACCCCGGATTT 298 571 1125 Antisense
CCCCGGATTTCTTGTTCATCAGGGA 697 261 1140 Antisense
GTTCTTGTCGATGCCACCAAATCAA 628 443 1261 Antisense
TCAACAAAAGCTCACCGGTTACCGG 513 627 1282 Antisense
TCATCATCCAGCTGAAACGCTTCCG 285 621 1313 Antisense
GCTTCCGCCACACAATGTTCGGATC 236 307 1331 Antisense
TTCCCGTTGCGGAGCCAAGATTTTG 333 697 1381 Antisense
GGTGGACGACAAGTGGCGAGCCAGC 506 499 1409 Antisense
GATAATCAGTGCGGCCGACACGTTC 566 419 1519 Antisense
GTTCGGGGTTCTGAAACTTGGCGTG 299 439 1540 Antisense
Sequence Source Affymetrix Proprietary Database