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[191613_s_at] protein-tyrosine phosphatase

Description K04D7.4 /REP_DB=WormBase Gene ID /WP=CE06093 /TR=Q21214 /GB=CAA93513.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=protein-tyrosine phosphatase
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 25      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 70      6grp_total > 25      4grp_total > 38      6grp_highest_sub > 01_02      6grp_high1_sub > 01_02      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 257
1 2 3 4 range
A 430.4
(3)
P 		255.6
(-1.2)
P 		180.1
(-3)
P 		314
(0.2)
P 		250
B 426.9
(3)
P 		309.2
(0.2)
P 		177.1
(-3)
P 		315.8
(0.3)
P 		250
C 434.2
(3)
P 		305.8
(-0.4)
P 		205.1
(-3)
P 		264
(-1.5)
P 		229
avr 430.5
(3) 		290.2
(-0.5) 		187.4
(-3) 		297.9
(-0.3) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 285
1 2 3 4 5 6 range
A 402.6
(2.3)
P 		425.8
(3)
P 		212
(-3)
P 		214.4
(-2.9)
P 		250.8
(-1.9)
P 		212
(-3)
P 		214
B 408.7
(1.9)
P 		455.4
(3)
P 		298.7
(-0.6)
P 		193.6
(-3)
P 		217.6
(-2.4)
P 		224.1
(-2.3)
P 		262
C 373.2
(2)
P 		414.4
(3)
P 		233.3
(-1.5)
P 		246.5
(-1.1)
P 		170.3
(-3)
P 		189.9
(-2.5)
P 		244
avr 394.8
(2) 		431.9
(3) 		248
(-1.9) 		218.2
(-2.7) 		212.9
(-2.9) 		208.7
(-3) 		223
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 156.7
(3)
P 		55.5
(-2.5)
P 		47.1
(-2.9)
P 		46
(-3)
P 		111
B 136.1
(3)
P 		76.4
(-0.8)
P 		41
(-3)
P 		67.3
(-1.3)
P 		95
C 143.7
(3)
P 		87.9
(-0.4)
P 		71.5
(-1.4)
P 		44.5
(-3)
P 		99
avr 145.5
(3) 		73.3
(-1.7) 		53.2
(-3) 		52.6
(-3) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 105
1 2 3 4 5 6 range
A 74.2
(-1.4)
P 		151.4
(3)
P 		46.2
(-3)
P 		54.4
(-2.5)
P 		75.7
(-1.3)
P 		51.6
(-2.7)
P 		105
B 142.2
(2.4)
P 		151.6
(3)
P 		72.5
(-1.7)
P 		51.3
(-3)
P 		88.4
(-0.8)
P 		83.6
(-1.1)
P 		100
C 138.3
(3)
P 		126.5
(2.2)
P 		59.4
(-2.3)
P 		49.6
(-3)
P 		55.1
(-2.6)
P 		63.6
(-2.1)
P 		89
avr 118.2
(1.4) 		143.2
(3) 		59.4
(-2.5) 		51.8
(-3) 		73.1
(-1.6) 		66.3
(-2) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191613_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9454
Sequence Type Exemplar sequence
Representative Public ID K04D7.4 NCBI
Target Description K04D7.4 /REP_DB=WormBase Gene ID /WP=CE06093 /TR=Q21214 /GB=CAA93513.1 /SUBMIT=HINXTON /CHR=4 /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_069462(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069462 NCBI Caenorhabditis elegans K04D7.4 (K04D7.4) mRNA, complete cds. 11/11 A 
SNAP00000009543 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10183921:10188409:-1 11/11 None
GENEFINDER00000009552 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10183921:10193336:-1 11/11 None
K04D7.4 ENSEMBL cdna:known chromosome:CEL140:IV:10183883:10192036:-1 gene:K04D7.4 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
chrIV:10183926-10192042(-) 100.0 100.0
Public Domain and Genome References
Gene Title protein-tyrosine phosphatase
Ensembl K04D7.4
Entrez Gene 177898 Entrez gene
SwissProt P28192 EMBL-EBI
WormBase CE06093 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6470 protein amino acid dephosphorylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4721 phosphoprotein phosphatase activity inferred from electronic annotation QuickGO AmiGO
4725 protein tyrosine phosphatase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93513 Hypothetical protein K04D7.4 [Caenorhabditis elegans] ref|NP_501863.1| K04D7.4 [Caenorhabditis elegans] sp|P28192|PTP2_CAEEL Tyrosine-protein phosphatase 2 (Protein-tyrosine phosphatase 2) 0.0
blast CAE59914 Hypothetical protein CBG03399 [Caenorhabditis briggsae] 0.0
blast AAF56891 CG2005-PA, isoform A [Drosophila melanogaster] ref|NP_733288.1| CG2005-PA, isoform A [Drosophila melanogaster] 2.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.2E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 7.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.3E-9
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 8.5E-101
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.8E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.2E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 7.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.3E-9
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 8.5E-101
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.2E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 7.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.3E-9
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 8.5E-101
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.1E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501863.1 1 579-601
K04D7.4 1 579-601
SNAP00000009543 1 429-451
GENEFINDER00000009552 1 518-540
Sequence
Target Sequence 
>C. ELEGANS:191613_S_AT
tgaatcagacgtcataacactcccaggataccatagatctgatgaattcatggtcggatc
atggggtaatgaatgtgaagatctttggagattaacatggcaacaaaaagttcaaacaat
tgtgattctaaaccaacgagactcgttttggagaaaacttcccagttgtatatacgatgg
tgaaattcaacttcaacacggagataactttgtcctgctccaaaaagatgatcaacaact
ggaaattgaaaatgttcaaaaacagaggatcacttatcatgatgctccattgcttattct
ggctcataaatacccaccaagtgttccatcaccaacagatagtacttctacattatcact
ttctat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAATCAGACGTCATAACACTCCCA 331 575 2913 Antisense
AACACTCCCAGGATACCATAGATCT 184 133 2928 Antisense
GTGATTCTAAACCAACGAGACTCGT 309 483 3034 Antisense
AAACTTCCCAGTTGTATATACGATG 549 127 3067 Antisense
ACACGGAGATAACTTTGTCCTGCTC 608 109 3108 Antisense
GTCCTGCTCCAAAAAGATGATCAAC 674 475 3124 Antisense
GAGGATCACTTATCATGATGCTCCA 523 403 3177 Antisense
GATGCTCCATTGCTTATTCTGGCTC 156 415 3193 Antisense
GGCTCATAAATACCCACCAAGTGTT 135 539 3213 Antisense
GTTCCATCACCAACAGATAGTACTT 316 441 3235 Antisense
GTACTTCTACATTATCACTTTCTAT 386 459 3254 Antisense
Sequence Source Affymetrix Proprietary Database