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[175974_at]

Description Y41D4A.B /REP_DB=WormBase Gene ID /WP=CE26085 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 28      4grp_total > 21      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 50.2
(-0.2)
A 		31.4
(-1.5)
A 		9.4
(-3)
A 		96.4
(3)
A 		87
B 69.8
(2.9)
A 		36
(-0.3)
A 		7.7
(-3)
A 		70.6
(3)
A 		63
C 52.5
(-0.3)
A 		65.3
(1.6)
A 		34.8
(-3)
A 		74.7
(3)
A 		40
avr 57.5
(0.8) 		44.2
(-0.5) 		17.3
(-3) 		80.6
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 58.5
(3)
A 		2
(-3)
A 		7.7
(-2.4)
A 		9.4
(-2.2)
A 		28.7
(-0.2)
A 		41.9
(1.2)
A 		57
B 37.3
(3)
A 		37
(2.9)
A 		7.3
(-2.2)
A 		2.7
(-3)
A 		7.8
(-2.1)
A 		5.3
(-2.5)
A 		35
C 34
(3)
A 		16.9
(-0.5)
A 		4.5
(-3)
A 		8.3
(-2.2)
A 		21.4
(0.4)
A 		6.1
(-2.7)
A 		30
avr 43.3
(3) 		18.6
(-1) 		6.5
(-3) 		6.8
(-3) 		19.3
(-0.9) 		17.8
(-1.2) 		37
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 18.3
(3)
A 		6.8
(-1.3)
A 		2.4
(-3)
A 		14.1
(1.4)
A 		16
B 22.3
(3)
A 		8.9
(-0.9)
A 		1.8
(-3)
A 		15
(0.9)
A 		21
C 17.4
(1.7)
A 		18.8
(3)
A 		12.1
(-3)
A 		12.6
(-2.6)
A 		7
avr 19.3
(3) 		11.5
(-0.4) 		5.4
(-3) 		13.9
(0.7) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 10.8
(3)
A 		0.7
(-3)
A 		1.7
(-2.4)
A 		2.4
(-2)
A 		8.6
(1.7)
A 		10.2
(2.6)
A 		10
B 13
(3)
A 		12.3
(2.7)
A 		1.8
(-2.5)
A 		0.7
(-3)
A 		3.2
(-1.8)
A 		2
(-2.4)
A 		12
C 12.6
(3)
A 		5.2
(-0.9)
A 		1.2
(-3)
A 		1.7
(-2.7)
A 		6.9
(0)
A 		2.1
(-2.5)
A 		11
avr 12.1
(3) 		6.1
(-0.4) 		1.6
(-3) 		1.6
(-3) 		6.2
(-0.4) 		4.8
(-1.2) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175974_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19215
Sequence Type Exemplar sequence
Representative Public ID Y41D4A.B NCBI
Target Description Y41D4A.B /REP_DB=WormBase Gene ID /WP=CE26085 /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_067731(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067731 NCBI Caenorhabditis elegans Y41D4A.7 (Y41D4A.7) mRNA, complete cds. 9/11 None
SNAP00000028254 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1728418:1759946:-1 11/11 None
GENEFINDER00000028266 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1752117:1759946:-1 11/11 None
Y41D4A.7 ENSEMBL cdna:known chromosome:CEL140:IV:1756583:1761683:-1 gene:Y41D4A.7 9/11 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
chrIV:1755729-1761689(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y41D4A.7
Entrez Gene 189816 Entrez gene
SwissProt Q95Y23 EMBL-EBI
WormBase CE21837 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
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 AAK68457 Hypothetical protein Y41D4A.7 [Caenorhabditis elegans] ref|NP_500132.3| Y41D4A.7 [Caenorhabditis elegans] 1.0E-141
blast AAK68455 Hypothetical protein Y41D4A.5 [Caenorhabditis elegans] ref|NP_500128.1| Y41D4A.5 [Caenorhabditis elegans] 1.0E-138
blast CAE63841 Hypothetical protein CBG08397 [Caenorhabditis briggsae] 1.0E-133
blast CAE63841 Hypothetical protein CBG08397 [Caenorhabditis briggsae] 1.0E-121
blast AAK68457 Hypothetical protein Y41D4A.7 [Caenorhabditis elegans] ref|NP_500132.3| Y41D4A.7 [Caenorhabditis elegans] 1.0E-119
Protein Domains
Database ID Description E-Value
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.1E-78
Pfam IPR000120 EMBL-EBI Amidase 1.4E-105
Sequence
Target Sequence 
>C. ELEGANS:175974_AT
cgttgcctacgcgagaatacagatgtagatcagcaacgaaggaaaagtcaggcaaagctt
catcctcttccagaccgcccgttgcgccgagtcgcctcgaagctcaaccgaaaacctacg
aatgaaatcgcgaggctccgaaagaaaggtgacgactggaatgcaaatgatctgttcaaa
ttccaatattcggatcctgaagagggaactcctgaagagagaaaacagttgtgctatgat
tggttggataggctgcacgagatttcgaaaaagtattgctatttggcgtggtacgaatca
gcgatctacgcttgctattaccgcctggcgccgattttggttgaccctgtcgagaaaaag
cggatctggcacgacgtgaagcacgagtacgctgagattttcatgatgggacgtcggata
tggcgaagggcgattcatccgagtcgtctgagagttttctatgatttggcaatgctttgt
gtacgatttggtgatatggagaacgacgacaccgtgccgaaattcaaggaacttatgtcc
gactcgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTTGCCTACGCGAGAATACAGATG 645 247 280 Antisense
AGTCAGGCAAAGCTTCATCCTCTTC 340 61 325 Antisense
GATTGGTTGGATAGGCTGCACGAGA 545 435 517 Antisense
GGCGTGGTACGAATCAGCGATCTAC 439 541 564 Antisense
GCGATCTACGCTTGCTATTACCGCC 433 291 580 Antisense
CCGATTTTGGTTGACCCTGTCGAGA 437 237 610 Antisense
AAAGCGGATCTGGCACGACGTGAAG 46 125 636 Antisense
ATGGCGAAGGGCGATTCATCCGAGT 278 51 699 Antisense
TCATCCGAGTCGTCTGAGAGTTTTC 221 621 714 Antisense
GAACGACGACACCGTGCCGAAATTC 559 345 780 Antisense
TCAAGGAACTTATGTCCGACTCGAC 277 627 803 Antisense
Sequence Source Affymetrix Proprietary Database