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[173909_s_at]

Description C48137 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R10E11.3A /5_PRIME_EXT_DB=WormBase Gene ID /GB=C48137 /WB_GENE_ID=R10E11.3A /WP=CE23922 /CHR=3 /FEA=Genomic Cluster /DEF=Ubiquitin-specifc processing protease; C.elegans cDNA clone yk455f9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 84      4grp_highest_8_8 > 37      4grp_high_8_8 > 01      6grp_highest_nonorm > 83      6grp_total > 75      4grp_total > 07      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 410.7
(-1.2)
P 		368
(-3)
P 		415.4
(-1)
P 		509.3
(3)
P 		141
B 447.1
(2.8)
P 		334.2
(-3)
P 		368
(-1.3)
P 		450.6
(3)
P 		116
C 513.1
(3)
P 		346.1
(-3)
P 		390.1
(-1.4)
P 		462.3
(1.2)
P 		167
avr 457
(2.2) 		349.4
(-3) 		391.2
(-1) 		474.1
(3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 292
1 2 3 4 5 6 range
A 450
(-1)
P 		406.2
(-3)
P 		497.9
(1.3)
P 		535.4
(3)
P 		481
(0.5)
P 		513.4
(2)
P 		129
B 414.5
(-3)
P 		487.4
(-0.7)
P 		551.1
(1.3)
P 		461.6
(-1.5)
P 		460.4
(-1.5)
P 		603
(3)
P 		189
C 380.1
(-3)
P 		445.4
(-1.7)
P 		381.4
(-3)
P 		672
(3)
P 		413.9
(-2.3)
P 		625.5
(2)
P 		292
avr 414.9
(-3) 		446.3
(-1.9) 		476.8
(-0.8) 		556.3
(2.1) 		451.8
(-1.7) 		580.6
(3) 		166
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 149.5
(3)
P 		79.9
(-2.6)
P 		108.6
(-0.3)
P 		74.6
(-3)
P 		75
B 142.6
(3)
P 		82.6
(-3)
P 		85.3
(-2.7)
P 		96
(-1.7)
P 		60
C 169.9
(3)
P 		99.5
(-1.6)
P 		136
(0.8)
P 		78
(-3)
P 		92
avr 154
(3) 		87.3
(-2.6) 		110
(-0.7) 		82.9
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 83
(-3)
P 		144.5
(2.9)
P 		108.4
(-0.5)
P 		135.8
(2.1)
P 		145.1
(3)
P 		125
(1.1)
P 		62
B 144.2
(-1.7)
P 		162.2
(-0.7)
P 		133.8
(-2.3)
P 		122.3
(-3)
P 		187
(0.8)
P 		224.8
(3)
P 		103
C 140.9
(-0.7)
P 		135.9
(-0.9)
P 		97.1
(-3)
P 		135.1
(-1)
P 		133.9
(-1)
P 		209.4
(3)
P 		112
avr 122.7
(-2.2) 		147.5
(-0.2) 		113.1
(-3) 		131.1
(-1.5) 		155.3
(0.5) 		186.4
(3) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173909_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23861
Sequence Type Exemplar sequence
Representative Public ID C48137 NCBI
Target Description C48137 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R10E11.3A /5_PRIME_EXT_DB=WormBase Gene ID /GB=C48137 /WB_GENE_ID=R10E11.3A /WP=CE23922 /CHR=3 /FEA=Genomic Cluster /DEF=Ubiquitin-specifc processing protease; C.elegans cDNA clone yk455f9 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066761(11), NM_066762(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066761 NCBI Caenorhabditis elegans R10E11.3a (R10E11.3) mRNA, complete cds. 11/11 None
NM_066762 NCBI Caenorhabditis elegans R10E11.3b (R10E11.3) mRNA, complete cds. 11/11 None
SNAP00000016238 ENSEMBL cdna:SNAP chromosome:CEL140:III:9776532:9778462:1 11/11 None
GENEFINDER00000016254 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9776532:9778462:1 11/11 None
R10E11.3a.2 ENSEMBL cdna:known chromosome:CEL140:III:9776426:9778722:1 gene:R10E11.3 11/11 None
R10E11.3a.1 ENSEMBL cdna:known chromosome:CEL140:III:9776517:9778722:1 gene:R10E11.3 11/11 None
R10E11.3b ENSEMBL cdna:known chromosome:CEL140:III:9776532:9778462:1 gene:R10E11.3 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
chrIII:9776528-9778459(+) 100.0 100.0
Public Domain and Genome References
Ensembl R10E11.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54286 Hypothetical protein R10E11.3a [Caenorhabditis elegans] ref|NP_499162.1| R10E11.3a [Caenorhabditis elegans] sp|P34547|UBPX_CAEEL Probable ubiquitin carboxyl-terminal hydrolase R10E11.3 (Ubiquitin thiolesterase) (Ubiquitin-specific processing protease) (Deubiquitinating enzyme) 0.0
blast S40715 hypothetical protein R10E11.3 - Caenorhabditis elegans 0.0
blast CAB54287 Hypothetical protein R10E11.3b [Caenorhabditis elegans] ref|NP_499163.1| R10E11.3b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 1.0E-126
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173909_S_AT
atttctgcgaaacgtgctcgtcgaaacaggaagctcaaaagcgaatgcgaatcaagaaac
ctcctcaactgctggctctccatctgaaacgatttaaattcgtcgaacctctgaatcgac
acacaaagctttcttatcgagttgtatttccactggaattgcggctattcaatgtgggcg
atgatgctgaatacggtgatcggatgtatgacctggtcgcaacagtggttcattgtggag
ctactccaaatcgaggtcattatatcactttggtgaagagcaattcgttttggctggtat
ttgatgatgatattgttgaaaaactggaagtttcatcaatggaagagttctctggaatgt
ccacggatgcaaatattcaaatgccacctggaaatcaatcagctcctcaaaaagaattcc
gaatctgcctatattctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTTCTGCGAAACGTGCTCGTCGAA 572 15 778 Antisense
CGAATCAAGAAACCTCCTCAACTGC 540 251 825 Antisense
CTGGCTCTCCATCTGAAACGATTTA 500 241 849 Antisense
GAACCTCTGAATCGACACACAAAGC 679 345 882 Antisense
GTGATCGGATGTATGACCTGGTCGC 392 483 973 Antisense
GACCTGGTCGCAACAGTGGTTCATT 255 383 987 Antisense
GGAGCTACTCCAAATCGAGGTCATT 472 519 1014 Antisense
GAGCAATTCGTTTTGGCTGGTATTT 326 391 1055 Antisense
GGAAGAGTTCTCTGGAATGTCCACG 560 531 1118 Antisense
GCCACCTGGAAATCAATCAGCTCCT 329 279 1160 Antisense
GAATTCCGAATCTGCCTATATTCTG 120 325 1191 Antisense
Sequence Source Affymetrix Proprietary Database