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[194134_at]

Description C09D8.1 /REP_DB=WormBase Gene ID /WP=CE24794 /GEN=ptp-3 /TR=Q17859 /GB=CAA90189.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=protein-tyrosine phosphatase with fibronectin type III-like domains (DPTP and LAR like)
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 15      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 30      6grp_total > 16      4grp_total > 38      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1124
1 2 3 4 range
A 1694.2
(3)
P 		1060.3
(-0.6)
P 		635.2
(-3)
P 		1036.4
(-0.7)
P 		1059
B 1734
(3)
P 		1023.8
(-0.8)
P 		609.6
(-3)
P 		883.6
(-1.5)
P 		1124
C 1672.8
(3)
P 		1023.8
(-1)
P 		775.7
(-2.6)
P 		708.3
(-3)
P 		965
avr 1700.3
(3) 		1036
(-0.9) 		673.5
(-3) 		876.1
(-1.8) 		1027

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 973
1 2 3 4 5 6 range
A 1214.4
(1.9)
P 		1361.6
(3)
P 		562.6
(-3)
P 		764
(-1.5)
P 		684.1
(-2.1)
P 		754
(-1.6)
P 		799
B 1343.7
(3)
P 		1082.7
(1)
P 		726.3
(-1.7)
P 		640.1
(-2.4)
P 		555.8
(-3)
P 		576.8
(-2.8)
P 		788
C 1476.8
(3)
P 		993.8
(0)
P 		872
(-0.7)
P 		503.9
(-3)
P 		834
(-1)
P 		516.7
(-2.9)
P 		973
avr 1345
(3) 		1146
(1.4) 		720.3
(-2.1) 		636
(-2.8) 		691.3
(-2.4) 		615.8
(-3) 		729
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 498
1 2 3 4 range
A 616.9
(3)
P 		230.2
(-2)
P 		166.1
(-2.8)
P 		151.7
(-3)
P 		465
B 553
(3)
P 		252.8
(-1.4)
P 		141.3
(-3)
P 		188.3
(-2.3)
P 		412
C 553.8
(3)
P 		294.4
(-0.6)
P 		270.4
(-0.9)
P 		119.4
(-3)
P 		434
avr 574.6
(3) 		259.1
(-1.5) 		192.6
(-2.4) 		153.1
(-3) 		422

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 446
1 2 3 4 5 6 range
A 223.9
(-1.3)
P 		484.2
(3)
P 		122.5
(-3)
P 		193.8
(-1.8)
P 		206.4
(-1.6)
P 		183.6
(-2)
P 		362
B 467.6
(3)
P 		360.4
(0.8)
P 		176.4
(-2.9)
P 		169.6
(-3)
P 		225.8
(-1.9)
P 		215.1
(-2.1)
P 		298
C 547.4
(3)
P 		303.2
(-0.3)
P 		221.9
(-1.4)
P 		101.3
(-3)
P 		269.9
(-0.7)
P 		173
(-2)
P 		446
avr 413
(3) 		382.6
(2.3) 		173.6
(-2.6) 		154.9
(-3) 		234
(-1.2) 		190.6
(-2.2) 		258
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194134_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3863
Sequence Type Exemplar sequence
Representative Public ID C09D8.1 NCBI
Target Description C09D8.1 /REP_DB=WormBase Gene ID /WP=CE24794 /GEN=ptp-3 /TR=Q17859 /GB=CAA90189.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=protein-tyrosine phosphatase with fibronectin type III-like domains (DPTP and LAR like)
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001026771(11), NM_001026772(11), NM_001026773(11), AF316540(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026771 NCBI Caenorhabditis elegans Protein Tyrosine Phosphatase family member (ptp-3) (ptp-3) mRNA, complete cds. 11/11 None
NM_001026772 NCBI Caenorhabditis elegans Protein Tyrosine Phosphatase family member (ptp-3) (ptp-3) mRNA, complete cds. 11/11 None
NM_001026773 NCBI Caenorhabditis elegans Protein Tyrosine Phosphatase family member (ptp-3) (ptp-3) mRNA, complete cds. 11/11 None
AF316540 NCBI Caenorhabditis elegans PTP-3B (ptp-3B) mRNA, complete cds. 11/11 None
SNAP00000020587 ENSEMBL cdna:SNAP chromosome:CEL140:II:11006169:11011694:1 11/11 None
GENEFINDER00000020593 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11006169:11011694:1 11/11 None
C09D8.1a ENSEMBL cdna:known chromosome:CEL140:II:10975450:11012152:1 gene:C09D8.1 11/11 A 
C09D8.1b ENSEMBL cdna:known chromosome:CEL140:II:10993509:11011694:1 gene:C09D8.1 11/11 None
C09D8.1c ENSEMBL cdna:known chromosome:CEL140:II:11002892:11011694:1 gene:C09D8.1 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
chrII:10975446-11011691(+) 100.0 100.0
Public Domain and Genome References
Ensembl C09D8.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90189 Hypothetical protein C09D8.1a [Caenorhabditis elegans] emb|CAA86842.3| Hypothetical protein C09D8.1a [Caenorhabditis elegans] ref|NP_001021942.1| Protein Tyrosine Phosphatase family member (ptp-3) [Caenorhabditis elegans] 0.0
blast AAK01632 PTP-3A [Caenorhabditis elegans] sp|Q9BMN8|LAR_CAEEL Tyrosine-protein phosphatase Lar-like precursor (Protein-tyrosine phosphate 3) 0.0
blast CAD31752 Hypothetical protein C09D8.1b [Caenorhabditis elegans] emb|CAD31753.1| Hypothetical protein C09D8.1b [Caenorhabditis elegans] ref|NP_001021943.1| Protein Tyrosine Phosphatase family member (ptp-3) [Caenorhabditis elegans] 0.0
blast AAK01633 PTP-3B [Caenorhabditis elegans] 0.0
blast CAD59171 Hypothetical protein C09D8.1c [Caenorhabditis elegans] ref|NP_001021944.1| Protein Tyrosine Phosphatase family member (ptp-3) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.4E-15
Pfam IPR003961 EMBL-EBI Fibronectin, type III 7.9E-17
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.0E-18
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.9E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.5E-17
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.4E-103
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.6E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.9E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 6.9E-4
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.5E-17
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.4E-103
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.3E-7
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.4E-103
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.4E-103
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.0E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.0E-126
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.4E-103
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021942.1 1 20-42
C09D8.1a 1 20-42
SNAP00000020587 1 7-29
GENEFINDER00000020593 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:194134_AT
acaaagagcgcggagcctacattgccactcaagcaccaactaacgagacagccgcagatt
tttggcgagcaatttgggagcataacagcccgataatcgccatgctggtacggacaaacg
aacgaggacaagagcaatgtagtgactattggccattggaaactggagttcaagttggaa
tgctcgtcgttgagccgatggctgaatatgatatgaaacattatcatcttcgagagttta
ggatttcggatattaatactcgcgaagtccgaaccgttcgtcaattccatttcatggagt
ggcctgatgtcggaaagccgcacacagcagatcacttcctcgactttgtcacccaagttc
acaatacgtatgctcaattcggatgtactggcccgattacagtacactgttgctctggag
ccggacgcactgcagtcttcatcgcactttcgatcattttggataggatgcgtgctgagc
atgttgttgatgttttcacaacggttaaactgctccgaacagaacgtcaaaacatgattc
aagagccagagcagtatcacttcctgtatctagctgcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAAAGAGCGCGGAGCCTACATTGC 688 109 6104 Antisense
TACATTGCCACTCAAGCACCAACTA 447 643 6121 Antisense
GACAGCCGCAGATTTTTGGCGAGCA 117 369 6150 Antisense
GGAGCATAACAGCCCGATAATCGCC 27 521 6180 Antisense
GATAATCGCCATGCTGGTACGGACA 266 421 6195 Antisense
GAATGCTCGTCGTTGAGCCGATGGC 435 331 6281 Antisense
TAATACTCGCGAAGTCCGAACCGTT 173 625 6357 Antisense
GTGGCCTGATGTCGGAAAGCCGCAC 153 493 6402 Antisense
GTACACTGTTGCTCTGGAGCCGGAC 106 461 6505 Antisense
GAGCCAGAGCAGTATCACTTCCTGT 416 385 6646 Antisense
TATCACTTCCTGTATCTAGCTGCAT 72 661 6658 Antisense
Sequence Source Affymetrix Proprietary Database