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[193325_at] protein-tyrosine phosphatase

Description F16B4.8 /REP_DB=WormBase Gene ID /WP=CE19796 /GEN=cdc-25.2 /TR=O44628 /GB=AAB94237.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=protein-tyrosine phosphatase
Cluster 6grp_high1_10_10 > 76      6grp_total > 56      4grp_total > 33      6grp_cgc > 47      6grp_high1_sub > Da      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 73.1
(-3)
P 		122
(3)
P 		90.6
(-0.9)
A 		80.6
(-2.1)
P 		49
B 15.3
(-3)
A 		106
(3)
P 		85.2
(1.6)
A 		85.5
(1.6)
P 		91
C 31.2
(-3)
P 		93.1
(3)
A 		83.1
(2)
A 		88.2
(2.5)
P 		62
avr 39.9
(-3) 		107
(3) 		86.3
(1.1) 		84.8
(1) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 73.3
(-0.2)
A 		79.1
(0.3)
P 		87.2
(1)
A 		43.4
(-3)
A 		71.9
(-0.4)
P 		108.5
(3)
P 		65
B 53.5
(-2.1)
P 		79
(-0.2)
M 		73.2
(-0.6)
M 		60.1
(-1.6)
P 		42.4
(-3)
A 		119.8
(3)
P 		77
C 84.3
(-0.7)
P 		75.6
(-1.3)
A 		76.5
(-1.3)
P 		51.1
(-3)
A 		70.6
(-1.7)
A 		139.5
(3)
P 		88
avr 70.4
(-1.4) 		77.9
(-0.8) 		79
(-0.7) 		51.5
(-3) 		61.6
(-2.1) 		122.6
(3) 		71
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 26.6
(3)
P 		26.5
(3)
P 		23.7
(1.8)
A 		11.8
(-3)
P 		15
B 4.9
(-3)
A 		26.2
(3)
P 		19.7
(1.2)
A 		18.2
(0.7)
P 		21
C 10.3
(-3)
P 		26.8
(2.3)
A 		29
(3)
A 		14.9
(-1.5)
P 		19
avr 13.9
(-3) 		26.5
(3) 		24.1
(1.9) 		15
(-2.5) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 13.5
(-2.1)
A 		28.1
(3)
P 		19
(-0.2)
A 		11
(-3)
A 		21.7
(0.8)
P 		26.4
(2.4)
P 		17
B 18.6
(-2.4)
P 		26.3
(-0.8)
M 		17.8
(-2.6)
M 		15.9
(-3)
P 		17.2
(-2.7)
A 		44.7
(3)
P 		29
C 31.2
(0.4)
P 		23.1
(-0.9)
A 		19.5
(-1.5)
P 		10.3
(-3)
A 		22.9
(-0.9)
A 		46.7
(3)
P 		36
avr 21.1
(-1.1) 		25.8
(-0) 		18.8
(-1.6) 		12.4
(-3) 		20.6
(-1.2) 		39.3
(3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193325_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15159
Sequence Type Exemplar sequence
Representative Public ID F16B4.8 NCBI
Target Description F16B4.8 /REP_DB=WormBase Gene ID /WP=CE19796 /GEN=cdc-25.2 /TR=O44628 /GB=AAB94237.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=protein-tyrosine phosphatase
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_071045(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071045 NCBI Caenorhabditis elegans Cell Division Cycle related family member (cdc-25.2) (cdc-25.2) mRNA, complete cds. 11/11 None
SNAP00000004014 ENSEMBL cdna:SNAP chromosome:CEL140:V:1582608:1584763:1 11/11 None
GENEFINDER00000004034 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1582611:1584763:1 11/11 None
F16B4.8 ENSEMBL cdna:known chromosome:CEL140:V:1577519:1585361:1 gene:F16B4.8 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
chrV:1577566-1584763(+) 100.0 100.0
Public Domain and Genome References
Gene Title protein-tyrosine phosphatase
Gene Symbol cdc-25.2
Ensembl F16B4.8
Entrez Gene 178645 Entrez gene
SwissProt O44628 EMBL-EBI
WormBase CE19796 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
87 M phase of mitotic cell cycle inferred from electronic annotation QuickGO AmiGO
6470 protein amino acid dephosphorylation inferred from electronic annotation QuickGO AmiGO
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
4725 protein tyrosine phosphatase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB94237 Cell division cycle related protein 25.2 [Caenorhabditis elegans] ref|NP_503446.1| Cell Division Cycle related family member (cdc-25.2) [Caenorhabditis elegans] sp|O44628|MPIP2_CAEEL M-phase inducer phosphatase cdc-25.2 (Cell division cycle related protein 25.2) 0.0
blast CAA77456 Hypothetical protein ZK637.11 [Caenorhabditis elegans] ref|NP_498972.1| ZK637.11 [Caenorhabditis elegans] sp|P30634|MPIP3_CAEEL M-phase inducer phosphatase cdc-25.3 (Cell division cycle related protein 25.3) 6.0E-45
blast CAE63674 Hypothetical protein CBG08176 [Caenorhabditis briggsae] 3.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR001763 EMBL-EBI Rhodanese-like 1.6E-21
Pfam IPR001763 EMBL-EBI Rhodanese-like 1.6E-21
Pfam IPR001763 EMBL-EBI Rhodanese-like 1.6E-21
Sequence
Target Sequence 
>C. ELEGANS:193325_AT
attctcacaggctcgtggtccaaaaatggcgtatgctcttcggcaagtagatcgagagct
taatgtgaaccactacccaaaatgtgattatgaagagatgtatgtgctcgatcttggata
tcgaaattttttcttcgctgcgaacgaagccaatatcacgaatctctgccaaccccacgc
atactgtgaaatgcacgacaaggagcacacgatggagctcaagaagtacaacttccacaa
caagggtcaatcggtactgcggactgtgagcatgagccgctccttcaagtccttgccgac
gggttccgcgttcaacttcgtcgcctcatctgcttcgttcacctcggcaccgtccacgtc
gacagagaacattgataccaacgatgattgccagaaaagccggacgcctgccgttccgcg
gatcgcttcgaggcgtaacttgttcagtgatccttcacactctccaacgaactttgcaca
atttcctctgacttgttcacgagaaacgccctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTCACAGGCTCGTGGTCCAAAA 153 7 903 Antisense
AAATGGCGTATGCTCTTCGGCAAGT 309 121 926 Antisense
GCCAATATCACGAATCTCTGCCAAC 646 277 1051 Antisense
CCAACCCCACGCATACTGTGAAATG 504 275 1071 Antisense
GTCAATCGGTACTGCGGACTGTGAG 250 463 1148 Antisense
CACCGTCCACGTCGACAGAGAACAT 493 201 1250 Antisense
ATTGCCAGAAAAGCCGGACGCCTGC 469 7 1289 Antisense
CGCTTCGAGGCGTAACTTGTTCAGT 118 249 1326 Antisense
CTTGTTCAGTGATCCTTCACACTCT 296 217 1341 Antisense
AACTTTGCACAATTTCCTCTGACTT 555 139 1372 Antisense
GACTTGTTCACGAGAAACGCCCTCT 553 371 1392 Antisense
Sequence Source Affymetrix Proprietary Database