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[193696_at] Ubiquitin carboxyl-terminal hydrolases family 2

Description F40F12.5A /REP_DB=WormBase Gene ID /WP=CE23712 /TR=Q9U3F9 /GB=CAB54246.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Ubiquitin carboxyl-terminal hydrolases family 2
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 59      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 87      6grp_total > 48      4grp_total > 31      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 610
1 2 3 4 range
A 1155.6
(3)
P 		763.6
(-2.5)
P 		729.7
(-3)
P 		932
(-0.2)
P 		426
B 1221
(3)
P 		785.2
(-1.8)
P 		674.2
(-3)
P 		1005.5
(0.6)
P 		547
C 1146.9
(3)
P 		610.6
(-3)
P 		747
(-1.5)
P 		1123.6
(2.7)
P 		536
avr 1174.5
(3) 		719.8
(-3) 		717
(-3) 		1020.4
(1) 		458

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 707
1 2 3 4 5 6 range
A 1295.6
(2.7)
P 		1075.3
(0.7)
P 		689.9
(-3)
P 		854.5
(-1.4)
P 		1196.3
(1.8)
P 		1322.8
(3)
P 		633
B 1187.2
(1)
P 		1130.9
(0.5)
P 		758.6
(-3)
P 		1216.9
(1.3)
P 		954.8
(-1.2)
P 		1397
(3)
P 		638
C 1171.1
(2.5)
P 		1034.9
(-0.6)
P 		967.9
(-2.1)
P 		928.6
(-3)
P 		1034.7
(-0.6)
P 		1192.9
(3)
P 		264
avr 1218
(2) 		1080.4
(0.3) 		805.5
(-3) 		1000
(-0.7) 		1061.9
(0.1) 		1304.2
(3) 		499
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 284
1 2 3 4 range
A 420.8
(3)
P 		165.8
(-2.4)
P 		190.8
(-1.9)
P 		136.4
(-3)
P 		284
B 389.4
(3)
P 		193.9
(-2)
P 		156.2
(-3)
P 		214.3
(-1.5)
P 		233
C 379.6
(3)
P 		175.6
(-3)
P 		260.4
(-0.5)
P 		189.5
(-2.6)
P 		204
avr 396.6
(3) 		178.4
(-3) 		202.5
(-2.3) 		180.1
(-3) 		218

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 371
1 2 3 4 5 6 range
A 238.8
(-0.7)
P 		382.4
(3)
P 		150.2
(-3)
P 		216.7
(-1.3)
P 		361
(2.4)
P 		322.1
(1.4)
P 		232
B 413.1
(1.1)
P 		376.4
(0.4)
P 		184.2
(-3)
P 		322.3
(-0.5)
P 		387.9
(0.6)
P 		521
(3)
P 		337
C 434.1
(3)
P 		315.8
(0.1)
P 		246.3
(-1.6)
P 		186.7
(-3)
P 		334.8
(0.6)
P 		399.3
(2.2)
P 		247
avr 362
(1.6) 		358.2
(1.5) 		193.6
(-3) 		241.9
(-1.7) 		361.2
(1.6) 		414.1
(3) 		221
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193696_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6614
Sequence Type Exemplar sequence
Representative Public ID F40F12.5A NCBI
Target Description F40F12.5A /REP_DB=WormBase Gene ID /WP=CE23712 /TR=Q9U3F9 /GB=CAB54246.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Ubiquitin carboxyl-terminal hydrolases family 2
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_001027399(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027399 NCBI Caenorhabditis elegans F40F12.5 (F40F12.5) mRNA, complete cds. 11/11 None
SNAP00000010925 ENSEMBL cdna:SNAP chromosome:CEL140:III:9898890:9903717:-1 11/11 None
GENEFINDER00000010932 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9898890:9909599:-1 11/11 None
F40F12.5 ENSEMBL cdna:known chromosome:CEL140:III:9898504:9910548:-1 gene:F40F12.5 11/11 A 
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:9898885-9910544(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ubiquitin carboxyl-terminal hydrolases family 2
Ensembl F40F12.5
Entrez Gene 176401 Entrez gene
SwissProt Q7JMS4 EMBL-EBI
WormBase CE36647 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAF31477 Hypothetical protein F40F12.5 [Caenorhabditis elegans] ref|NP_001022570.1| F40F12.5 [Caenorhabditis elegans] 0.0
blast F88568 protein F40F12.5 [imported] - Caenorhabditis elegans 0.0
blast S42834 F40F12.5 protein - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 2.2E-5
Pfam IPR000938 EMBL-EBI CAP-Gly domain 1.7E-20
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 2.2E-5
Pfam IPR000938 EMBL-EBI CAP-Gly domain 1.7E-20
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 2.2E-5
Pfam IPR000938 EMBL-EBI CAP-Gly domain 1.7E-20
Sequence
Target Sequence 
>C. ELEGANS:193696_AT
gcggttccggcttgttcaaaatgtcaagcatgctcagaagtctactgcccgacgtgtttc
ctgacgagaagagttttctattcggaagtgatattctgcagaaaatgtttccaccataca
catcttttgccggaaattgaagatcacaagagtcgagatctctacccacctggaaaacca
caaaagaaaccacactcccacaaaatggttctctcagcggttctgtgcatagaaacatct
cattacgttgcttatgttcgaacttcatcgaatcaatgggtattctttgattcgatggct
gatcgagaaggactatctgatgggttcaatgttccagtggtcagagaatgtggaaatatg
tccgattggttatcactgcaaggatggaatcgtttgaaggatgctgatgagtgtggacag
attaaggtatgggaattgaataaaaacatttctccaaatgacagaaaattggaaattgca
atgttcggcaaacaatcatcgttggatcctctggtaggacgtctcctttccgacagttat
atttgtttctacgaggacgcctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGTTCCGGCTTGTTCAAAATGTC 290 291 2299 Antisense
AGCATGCTCAGAAGTCTACTGCCCG 121 79 2325 Antisense
TCCACCATACACATCTTTTGCCGGA 523 587 2408 Antisense
ACAAGAGTCGAGATCTCTACCCACC 552 113 2444 Antisense
CACACTCCCACAAAATGGTTCTCTC 499 195 2489 Antisense
TTCTCTCAGCGGTTCTGTGCATAGA 189 691 2507 Antisense
GAAACATCTCATTACGTTGCTTATG 202 357 2530 Antisense
GGGTATTCTTTGATTCGATGGCTGA 350 497 2576 Antisense
CAATCATCGTTGGATCCTCTGGTAG 347 181 2791 Antisense
ACGTCTCCTTTCCGACAGTTATATT 133 93 2817 Antisense
TATTTGTTTCTACGAGGACGCCTCA 263 661 2838 Antisense
Sequence Source Affymetrix Proprietary Database