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[176005_at]

Description Y41D4A.E /REP_DB=WormBase Gene ID /WP=CE26086 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 32      4grp_total > 55      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 149.4
(3)
A 		109.7
(0.5)
A 		108.4
(0.4)
A 		54.4
(-3)
A 		95
B 204.7
(3)
A 		98.5
(-2.7)
A 		93.2
(-3)
A 		94.7
(-2.9)
A 		112
C 169.2
(3)
A 		133.6
(-3)
A 		134.1
(-2.9)
A 		134.8
(-2.8)
A 		36
avr 174.4
(3) 		113.9
(-1.5) 		111.9
(-1.7) 		94.6
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 100.9
(2.2)
A 		87.1
(0.6)
A 		107.8
(3)
A 		92.2
(1.2)
A 		104.5
(2.6)
A 		55.9
(-3)
A 		52
B 144
(1.8)
A 		133.9
(0.9)
A 		157.3
(3)
A 		156
(2.9)
A 		104.9
(-1.8)
A 		91.8
(-3)
A 		66
C 117.2
(3)
A 		104.1
(0.7)
A 		104.9
(0.8)
A 		103.1
(0.5)
A 		83.8
(-2.9)
A 		83.3
(-3)
A 		34
avr 120.7
(2.7) 		108.4
(1.1) 		123.3
(3) 		117.1
(2.2) 		97.7
(-0.3) 		77
(-3) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 54.4
(3)
A 		23.8
(-1)
A 		28.3
(-0.4)
A 		8
(-3)
A 		46
B 65.3
(3)
A 		24.3
(-2.5)
A 		21.6
(-2.8)
A 		20.2
(-3)
A 		45
C 56
(3)
A 		38.4
(-0.2)
A 		46.7
(1.3)
A 		22.7
(-3)
A 		33
avr 58.6
(3) 		28.8
(-1.3) 		32.2
(-0.8) 		17
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 18.6
(-1.3)
A 		31
(2.8)
A 		23.5
(0.3)
A 		23.4
(0.3)
A 		31.5
(3)
A 		13.6
(-3)
A 		18
B 50.1
(3)
A 		44.6
(0.9)
A 		38.2
(-1.5)
A 		41.3
(-0.3)
A 		42.6
(0.2)
A 		34.2
(-3)
A 		16
C 43.5
(3)
A 		31.8
(-0.1)
A 		26.7
(-1.4)
A 		20.7
(-3)
A 		27.1
(-1.3)
A 		27.9
(-1.1)
A 		23
avr 37.4
(3) 		35.8
(2.2) 		29.5
(-0.9) 		28.5
(-1.4) 		33.7
(1.2) 		25.2
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176005_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19342
Sequence Type Exemplar sequence
Representative Public ID Y41D4A.E NCBI
Target Description Y41D4A.E /REP_DB=WormBase Gene ID /WP=CE26086 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_067727(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067727 NCBI Caenorhabditis elegans Y41D4A.5 (Y41D4A.5) mRNA, complete cds. 9/11 A 
SNAP00000028254 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1728418:1759946:-1 9/11 None
Y41D4A.5 ENSEMBL cdna:known chromosome:CEL140:IV:1728049:1737882:-1 gene:Y41D4A.5 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000028269 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1728423-1737869(-) 97.31 100.0
Public Domain and Genome References
Gene Title
Ensembl Y41D4A.5
Entrez Gene 176981 Entrez gene
WormBase CE39047 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.19703.1.S1_AT similar to protein tyrosine phosphatase, non-receptor type 12 cfa
CHICKEN:GGA.8364.1.S1_AT similar to protein tyrosine phosphatase, non-receptor type 12; protein-tyrosine phosphatase G1 gga
CHICKEN:GGAAFFX.22531.1.S1_AT similar to protein tyrosine phosphatase, non-receptor type 12; protein-tyrosine phosphatase G1 gga
HG-U95AV2:1463_AT protein tyrosine phosphatase, non-receptor type 12 hs
HC-G110:1463_AT protein tyrosine phosphatase, non-receptor type 12 hs
HUGENEFL:M93425_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A:202006_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133_PLUS_2:202006_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-FOCUS:202006_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A_2:202006_AT protein tyrosine phosphatase, non-receptor type 12 hs
U133_X3P:G4506286_3P_AT protein tyrosine phosphatase, non-receptor type 12 hs
U133_X3P:HS.62.1.S1_3P_A_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A_2:216915_S_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133_PLUS_2:216915_S_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A:216915_S_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133_PLUS_2:216884_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A_2:216884_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133A:216884_AT protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133_PLUS_2:244356_AT Protein tyrosine phosphatase, non-receptor type 12 hs
HG-U133B:244356_AT Protein tyrosine phosphatase, non-receptor type 12 hs
HU35KSUBB:RC_AA035649_AT Protein tyrosine phosphatase, non-receptor type 12 hs
U133_X3P:HS.293096.0.S1_3P_AT Protein tyrosine phosphatase, non-receptor type 12 hs
MOUSE430_2:1455105_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOE430A:1455105_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430A_2:1455105_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430_2:1450478_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOE430A:1450478_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430A_2:1450478_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MU11KSUBB:X63440_S_AT protein tyrosine phosphatase, non-receptor type 12 mm
MG-U74AV2:102840_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOE430A:1450479_X_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430A_2:1450479_X_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430_2:1450479_X_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOE430A:1422045_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430A_2:1422045_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOUSE430_2:1422045_A_AT protein tyrosine phosphatase, non-receptor type 12 mm
MOE430B:1439705_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
MOUSE430_2:1439705_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
MG-U74CV2:138106_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
MOE430B:1459459_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
MOUSE430_2:1459459_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
MU19KSUBC:TC37721_S_AT Protein tyrosine phosphatase, non-receptor type 12 (Ptpn12), mRNA mm
Protein Similarities
Method ID Description E-Value
blast AAK68455 Hypothetical protein Y41D4A.5 [Caenorhabditis elegans] ref|NP_500128.1| Y41D4A.5 [Caenorhabditis elegans] 0.0
blast AAK68456 Hypothetical protein Y41D4A.6 [Caenorhabditis elegans] ref|NP_500129.1| Y41D4A.6 [Caenorhabditis elegans] 0.0
blast CAE63839 Hypothetical protein CBG08395 [Caenorhabditis briggsae] 1.0E-166
blast AAK68455 Hypothetical protein Y41D4A.5 [Caenorhabditis elegans] ref|NP_500128.1| Y41D4A.5 [Caenorhabditis elegans] 1.0E-138
blast CAE63838 Hypothetical protein CBG08394 [Caenorhabditis briggsae] 1.0E-130
blast AAH58051 Protein tyrosine phosphatase, non-receptor type 12 [Danio rerio] ref|NP_956963.1| protein tyrosine phosphatase, non-receptor type 12 [Danio rerio] 3.0E-36
Protein Domains
Database ID Description E-Value
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.3E-62
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.1E-78
Pfam IPR000120 EMBL-EBI Amidase 1.4E-105
Sequence
Target Sequence 
>C. ELEGANS:176005_AT
gattcttcaccgattcttgtacattgtagtgcgggtgttggtagaacgggcacaattatt
gcgattaattttattcgtgaacaaatgaaagccgagacacttcatagtattgatattttt
ggattggttatgacgttgcggaagcagagagccagtatggttcagacgcaggaccaattc
caattcgttcaccgctgcattgcctcctactgccgtcgacatttgggaatcatcgaggag
ccgaagcttgatcttgctccaccagttgccactgctgatcttccagtcggatcttcgggc
tccaaaactttttcgacaattttcgatttttcaaacaaaaattcagaggatttttgtaat
ttcacacggaaattttgtgacaatttgcctgaaatcttacccgaaacaacgtcagcaatc
cgatcatcaatcgactcattcgtagaacgtgcatcaagtgtaattcgcgagcaaaagggc
cgtctcgagcgtggaacctctcgttttctagactcaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTCTTCACCGATTCTTGTACATT 670 431 865 Antisense
TGCGGGTGTTGGTAGAACGGGCACA 656 567 894 Antisense
GGTTCAGACGCAGGACCAATTCCAA 245 507 1023 Antisense
CCTACTGCCGTCGACATTTGGGAAT 26 269 1070 Antisense
GAGCCGAAGCTTGATCTTGCTCCAC 67 387 1102 Antisense
TTTGCCTGAAATCTTACCCGAAACA 103 667 1248 Antisense
TTACCCGAAACAACGTCAGCAATCC 646 681 1261 Antisense
GCAATCCGATCATCAATCGACTCAT 164 323 1279 Antisense
CGTGCATCAAGTGTAATTCGCGAGC 17 243 1312 Antisense
GCGAGCAAAAGGGCCGTCTCGAGCG 518 289 1331 Antisense
AACCTCTCGTTTTCTAGACTCAATT 664 145 1359 Antisense
Sequence Source Affymetrix Proprietary Database