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[173533_at]

Description C45619 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F31E3.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C45619 /WB_GENE_ID=F31E3.4 /WP=CE01269 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk400a12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 68      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 93      6grp_total > 69      4grp_total > 13      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 484
1 2 3 4 range
A 435.9
(3)
P 		190
(-3)
P 		233.3
(-1.9)
P 		325.5
(0.3)
P 		246
B 251.2
(-1.8)
P 		151.9
(-3)
P 		183.3
(-2.6)
P 		636.3
(3)
P 		484
C 320.1
(0.3)
P 		251.8
(-2.1)
P 		226.9
(-3)
P 		394.8
(3)
P 		168
avr 335.7
(0.3) 		197.9
(-3) 		214.5
(-2.6) 		452.2
(3) 		254

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 653
1 2 3 4 5 6 range
A 492.8
(1.2)
P 		319.3
(-1.5)
P 		375.2
(-0.6)
P 		226.5
(-3)
P 		449.4
(0.6)
P 		602.6
(3)
P 		376
B 422.3
(-1.6)
P 		501.6
(-0.4)
P 		346.7
(-2.8)
P 		335.2
(-3)
P 		412.5
(-1.8)
P 		714.3
(3)
P 		379
C 389.7
(-1.6)
P 		540
(-0.2)
P 		242.1
(-3)
P 		431.2
(-1.2)
P 		393.8
(-1.6)
P 		879.1
(3)
P 		637
avr 434.9
(-1.3) 		453.6
(-1.1) 		321.3
(-3) 		331
(-2.9) 		418.6
(-1.6) 		732
(3) 		411
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 158.7
(3)
P 		41.2
(-3)
P 		61
(-2)
P 		47.6
(-2.7)
P 		118
B 80.1
(-0.4)
P 		37.5
(-3)
P 		42.5
(-2.7)
P 		135.6
(3)
P 		98
C 106
(3)
P 		72.4
(-2.1)
P 		79.1
(-1.1)
P 		66.6
(-3)
P 		39
avr 114.9
(3) 		50.4
(-3) 		60.9
(-2) 		83.3
(0.1) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 237
1 2 3 4 5 6 range
A 90.9
(-0.8)
P 		113.5
(0.8)
P 		81.7
(-1.4)
P 		57.5
(-3)
P 		135.6
(2.3)
P 		146.7
(3)
P 		89
B 146.9
(-0.9)
P 		167
(-0.3)
P 		84.2
(-3)
P 		88.8
(-2.8)
P 		167.6
(-0.3)
P 		266.4
(3)
P 		182
C 144.4
(-0.9)
P 		164.8
(-0.3)
P 		61.6
(-3)
P 		86.7
(-2.4)
P 		127.4
(-1.3)
P 		294.3
(3)
P 		233
avr 127.4
(-1.1) 		148.4
(-0.3) 		75.8
(-3) 		77.7
(-2.9) 		143.5
(-0.5) 		235.8
(3) 		160
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173533_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24342
Sequence Type Exemplar sequence
Representative Public ID C45619 NCBI
Target Description C45619 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F31E3.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C45619 /WB_GENE_ID=F31E3.4 /WP=CE01269 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk400a12 : 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_066118(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066118 NCBI Caenorhabditis elegans F31E3.4 (F31E3.4) mRNA, complete cds. 11/11 None
F31E3.4 ENSEMBL cdna:known chromosome:CEL140:III:6963554:6968045:-1 gene:F31E3.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000009467 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6963572-6968006(-) 99.43 100.0
Public Domain and Genome References
Gene Title
Ensembl F31E3.4
Entrez Gene 175974 Entrez gene
SwissProt P53015 EMBL-EBI
WormBase CE01269 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.12649.1.A1_AT similar to ubiquitin specific protease 52 cfa
CANINE_2:CFAAFFX.1153.1.S1_S_AT similar to ubiquitin specific protease 52 cfa
DROSOPHILA_2:1636801_AT dm
DROSGENOME1:154804_AT dm
CHICKEN:GGA.18769.1.S1_S_AT ubiquitin specific peptidase 52 gga
HG-U133_PLUS_2:203117_S_AT ubiquitin specific peptidase 52 hs
HG-U133A:203117_S_AT ubiquitin specific peptidase 52 hs
HG-U133A_2:203117_S_AT ubiquitin specific peptidase 52 hs
HU35KSUBA:RC_AA459939_AT ubiquitin specific peptidase 52 hs
HU35KSUBA:N24994_AT ubiquitin specific peptidase 52 hs
U133_X3P:G7662257_3P_A_AT ubiquitin specific peptidase 52 hs
HG-U95AV2:34801_AT ubiquitin specific peptidase 52 hs
MG-U74AV2:94397_AT ubiquitin specific peptidase 52 mm
MU11KSUBA:AA183544_S_AT ubiquitin specific peptidase 52 mm
MG-U74AV2:161556_AT ubiquitin specific peptidase 52 mm
MG-U74BV2:162815_AT ubiquitin specific peptidase 52 mm
MOE430A:1426700_A_AT ubiquitin specific peptidase 52 mm
MOUSE430A_2:1426700_A_AT ubiquitin specific peptidase 52 mm
MOUSE430_2:1426700_A_AT ubiquitin specific peptidase 52 mm
MU19KSUBC:TC37302_AT Ubiquitin specific peptidase 52, mRNA (cDNA clone IMAGE:3591885) mm
RG-U34B:RC_AA955628_AT ubiquitin specific protease 52 rn
RG-U34B:RC_AA955628_G_AT ubiquitin specific protease 52 rn
RAE230A:1389022_AT ubiquitin specific protease 52 rn
RAT230_2:1389022_AT ubiquitin specific protease 52 rn
RAE230B:1396591_AT ubiquitin specific protease 52 rn
RAT230_2:1396591_AT ubiquitin specific protease 52 rn
YEAST_2:1770802_AT Essential subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex, which acts to control poly(A) tail length and regulate the stoichiometry and activity of postreplication repair complexes Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4527 exonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81687 Hypothetical protein F31E3.4 [Caenorhabditis elegans] ref|NP_498519.1| F31E3.4 [Caenorhabditis elegans] sp|P53015|YPO4_CAEEL Hypothetical protein F31E3.4 in chromosome III 0.0
blast CAE70056 Hypothetical protein CBG16490 [Caenorhabditis briggsae] 0.0
blast CAE56762 Hypothetical protein CBG24565 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006055 EMBL-EBI Exonuclease 1.1E-30
Sequence
Target Sequence 
>C. ELEGANS:173533_AT
tcggtttaaattgaaggccttccagataagcttactgtaaaagttcgtagaaaaccagaa
aattatcactttcagcataataattattatatatttacttacgtaccagattatctcaag
ttcacttaagctatcactttgtatatcaattccccattttgcgagtcaattcatgtattt
taaatactcgtgtaatctcaatattcgtcccaatattatttcttgaaacattcccctgtt
tttctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGGTTTAAATTGAAGGCCTTCCAG 38 1 3401 Antisense
AAGGCCTTCCAGATAAGCTTACTGT 200 157 3414 Antisense
ACCAGAAAATTATCACTTTCAGCAT 419 85 3454 Antisense
TTTACTTACGTACCAGATTATCTCA 316 671 3494 Antisense
GATTATCTCAAGTTCACTTAAGCTA 575 427 3509 Antisense
GTATATCAATTCCCCATTTTGCGAG 231 453 3541 Antisense
ATTCCCCATTTTGCGAGTCAATTCA 638 7 3549 Antisense
GTATTTTAAATACTCGTGTAATCTC 294 453 3575 Antisense
GTGTAATCTCAATATTCGTCCCAAT 550 483 3590 Antisense
AATATTCGTCCCAATATTATTTCTT 11 175 3600 Antisense
TTGAAACATTCCCCTGTTTTTCTCA 437 703 3623 Antisense
Sequence Source Affymetrix Proprietary Database