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[184705_at]

Description Y71A12B.9 /REP_DB=WormBase Gene ID /WP=CE26241 /TR=Q9GRV2 /GB=CAC14423.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 12      4grp_total > 23      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 2.9
(-3)
A 		5.5
(-1.5)
A 		10.4
(1.3)
A 		13.4
(3)
A 		11
B 53.6
(3)
A 		26.4
(-2.1)
A 		21.3
(-3)
A 		23
(-2.7)
A 		32
C 19.5
(0.6)
A 		5
(-2.4)
A 		2.2
(-3)
A 		30.9
(3)
A 		29
avr 25.3
(3) 		12.3
(-2.6) 		11.3
(-3) 		22.4
(1.8) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 38.4
(1.9)
A 		24.8
(-0.3)
A 		45.5
(3)
A 		8.7
(-2.9)
A 		8
(-3)
A 		8.3
(-3)
A 		38
B 6.6
(-2.2)
A 		1.8
(-3)
A 		3
(-2.8)
A 		36.6
(3)
A 		17.3
(-0.3)
A 		12
(-1.2)
A 		35
C 22.6
(-0.5)
A 		49.9
(3)
A 		6.6
(-2.5)
A 		2.9
(-3)
A 		26.7
(0)
A 		18.7
(-1)
A 		47
avr 22.5
(1.6) 		25.5
(3) 		18.4
(-0.4) 		16.1
(-1.5) 		17.3
(-0.9) 		13
(-3) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 1
(-3)
A 		1.2
(-2.3)
A 		2.7
(3)
A 		2
(0.5)
A 		2
B 17.1
(3)
A 		6.5
(-2.2)
A 		4.9
(-3)
A 		4.9
(-3)
A 		12
C 6.5
(3)
A 		1.4
(-2.4)
A 		0.8
(-3)
A 		5.2
(1.6)
A 		6
avr 8.2
(3) 		3
(-2.8) 		2.8
(-3) 		4
(-1.7) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 7.1
(0.9)
A 		8.8
(2.2)
A 		9.9
(3)
A 		2.2
(-2.8)
A 		2.4
(-2.7)
A 		2
(-3)
A 		8
B 2.3
(-1.9)
A 		0.6
(-3)
A 		0.7
(-2.9)
A 		9.7
(3)
A 		7
(1.2)
A 		4.5
(-0.4)
A 		9
C 8.4
(0.2)
A 		15.2
(3)
A 		1.7
(-2.5)
A 		0.6
(-3)
A 		8.6
(0.3)
A 		6.3
(-0.7)
A 		15
avr 5.9
(-0.4) 		8.2
(3) 		4.1
(-3) 		4.2
(-2.9) 		6
(-0.2) 		4.3
(-2.7) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184705_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.400
Sequence Type Exemplar sequence
Representative Public ID Y71A12B.9 NCBI
Target Description Y71A12B.9 /REP_DB=WormBase Gene ID /WP=CE26241 /TR=Q9GRV2 /GB=CAC14423.1 /SUBMIT=HINXTON /CHR=1 /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_061033(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061033 NCBI Caenorhabditis elegans Y71A12B.9 (Y71A12B.9) mRNA, complete cds. 11/11 None
SNAP00000038369 ENSEMBL cdna:SNAP chromosome:CEL140:I:13950480:13961585:-1 10/11 None
Y71A12B.9 ENSEMBL cdna:known chromosome:CEL140:I:13951468:13959746:-1 gene:Y71A12B.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000038397 1/11 Cross Hyb Matching Probes None
GENEFINDER00000038401 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13951398-13959677(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y71A12B.9
Entrez Gene 190579 Entrez gene
SwissProt Q9GRV2 EMBL-EBI
WormBase CE26241 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.21244.1.S1_AT similar to ubiquitin specific protease 3 cfa
CANINE_2:CFAAFFX.26000.1.S1_S_AT similar to ubiquitin specific protease 3 cfa
CHICKEN:GGAAFFX.2129.1.S1_S_AT similar to ubiquitin specific protease 3 gga
HG-U133_PLUS_2:221654_S_AT ubiquitin specific peptidase 3 hs
HG-FOCUS:221654_S_AT ubiquitin specific peptidase 3 hs
HG-U133A:221654_S_AT ubiquitin specific peptidase 3 hs
HG-U133A_2:221654_S_AT ubiquitin specific peptidase 3 hs
HU35KSUBA:RC_AA101080_AT ubiquitin specific peptidase 3 hs
HU35KSUBB:RC_N78670_AT ubiquitin specific peptidase 3 hs
HU35KSUBD:RC_T70088_AT ubiquitin specific peptidase 3 hs
U133_X3P:G4689127_3P_A_AT ubiquitin specific peptidase 3 hs
U133_X3P:HS.12030.0.A1_3P_AT ubiquitin specific peptidase 3 hs
HG-U133_PLUS_2:226652_AT ubiquitin specific peptidase 3 hs
HG-U133B:226652_AT ubiquitin specific peptidase 3 hs
HG-U95C:65144_AT ubiquitin specific peptidase 3 hs
U133_X3P:HS2.376526.2.S1_3P_X_AT Ubiquitin specific peptidase 3 hs
U133_X3P:HS2.376526.2.S1_3P_A_AT Ubiquitin specific peptidase 3 hs
U133_X3P:HS.298014.0.S1_3P_AT Ubiquitin specific peptidase 3 hs
HG-U133_PLUS_2:1562738_A_AT Ubiquitin specific peptidase 3 hs
HG-U133A_2:215392_AT Ubiquitin specific peptidase 3 hs
HG-U133_PLUS_2:215392_AT Ubiquitin specific peptidase 3 hs
HG-U133A:215392_AT Ubiquitin specific peptidase 3 hs
HG-U95E:70840_AT Ubiquitin specific peptidase 3 hs
HG-U95D:75344_AT Ubiquitin specific peptidase 3 hs
HG-U95D:75365_AT Ubiquitin specific peptidase 3 hs
HG-U95D:75367_G_AT Ubiquitin specific peptidase 3 hs
HG-U133_PLUS_2:244392_AT Ubiquitin specific peptidase 3 hs
HG-U133B:244392_AT Ubiquitin specific peptidase 3 hs
HG-U95D:69689_AT Ubiquitin specific peptidase 3 hs
HG-U95E:70790_AT Ubiquitin specific peptidase 3 hs
U133_X3P:HS.209433.0.A1_3P_AT Ubiquitin specific peptidase 3 hs
MG-U74AV2:99085_AT ubiquitin specific peptidase 3 mm
MOE430B:1435531_AT ubiquitin specific peptidase 3 mm
MOUSE430_2:1435531_AT ubiquitin specific peptidase 3 mm
MG-U74AV2:99084_S_AT ubiquitin specific peptidase 3 mm
MG-U74AV2:99086_G_AT ubiquitin specific peptidase 3 mm
MOE430A:1425023_AT ubiquitin specific peptidase 3 mm
MOUSE430A_2:1425023_AT ubiquitin specific peptidase 3 mm
MOUSE430_2:1425023_AT ubiquitin specific peptidase 3 mm
MOE430A:1425022_AT ubiquitin specific peptidase 3 mm
MOUSE430A_2:1425022_AT ubiquitin specific peptidase 3 mm
MOUSE430_2:1425022_AT ubiquitin specific peptidase 3 mm
MOE430B:1441056_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MOUSE430_2:1441056_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MOE430B:1444880_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MOUSE430_2:1444880_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MOUSE430_2:1446886_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MOE430B:1446886_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MU19KSUBB:TC29452_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MU19KSUBB:TC29546_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MU19KSUBC:TC35031_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MU19KSUBC:TC40833_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
MU11KSUBA:C81105_RC_AT Ubiquitin specific peptidase 3 (Usp3), mRNA mm
RG-U34B:RC_AA925744_G_AT ubiquitin specific protease 3 (predicted) rn
RG-U34B:RC_AA956794_AT ubiquitin specific protease 3 (predicted) rn
RG-U34B:RC_AA925744_AT ubiquitin specific protease 3 (predicted) rn
RAE230A:1389091_AT ubiquitin specific protease 3 (predicted) rn
RAT230_2:1389091_AT ubiquitin specific protease 3 (predicted) rn
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 CAC14423 Hypothetical protein Y71A12B.9 [Caenorhabditis elegans] ref|NP_493434.1| Y71A12B.9 [Caenorhabditis elegans] 0.0
blast CAE67996 Hypothetical protein CBG13606 [Caenorhabditis briggsae] 0.0
blast CAE67996 Hypothetical protein CBG13606 [Caenorhabditis briggsae] 1.0E-128
blast XP_392160 PREDICTED: similar to ENSANGP00000001119 [Apis mellifera] 4.0E-58
blast XP_781071 PREDICTED: similar to ubiquitin specific protease 3 [Strongylocentrotus purpuratus] 7.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR001607 EMBL-EBI Zn-finger in ubiquitin thiolesterase 5.3E-16
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 4.8E-57
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 5.0E-26
Pfam IPR001607 EMBL-EBI Zn-finger in ubiquitin thiolesterase 5.3E-16
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 4.7E-95
Sequence
Target Sequence 
>C. ELEGANS:184705_AT
gaggcttttatatcagtttgtccgcgatttcgaggctttcgacagcacgattctcatgaa
tttatgcgttatttcatggattcactgcatactgaaatgagaaaatgccggaaattgcct
ggaatgcctgatgataagcatacaccaatttccaaatattttgaagggacactacagagc
tcggttatatgtcaaacttgccgcaattgtagcaataaaattgacgagtttatggatctc
tcactggacatcccagcacaacgaaatgcgtcaaaagttcgactttccgattgtttaagc
acatttttcaagttagaaatgctggaaaaaggcgaaaaaccggaatgcgccaagtgtaaa
acgaaacaaacgtgctcaaagcaaatgtttattaggaaattgccacaggatagcgacgag
gcaccgtgtacctacagccttcaatcaataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGCTTTTATATCAGTTTGTCCGC 583 403 1384 Antisense
AGTTTGTCCGCGATTTCGAGGCTTT 618 61 1398 Antisense
TCGAGGCTTTCGACAGCACGATTCT 281 603 1413 Antisense
GCCGGAAATTGCCTGGAATGCCTGA 63 263 1490 Antisense
GATAAGCATACACCAATTTCCAAAT 204 423 1516 Antisense
GAAGGGACACTACAGAGCTCGGTTA 426 333 1546 Antisense
GGTTATATGTCAAACTTGCCGCAAT 222 505 1566 Antisense
GGACATCCCAGCACAACGAAATGCG 203 525 1629 Antisense
GTTCGACTTTCCGATTGTTTAAGCA 40 443 1660 Antisense
AGGATAGCGACGAGGCACCGTGTAC 163 57 1790 Antisense
TGTACCTACAGCCTTCAATCAATAA 624 559 1810 Antisense
Sequence Source Affymetrix Proprietary Database