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[187853_s_at]

Description Y56A3A.29 /REP_DB=WormBase Gene ID /WP=CE22594 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q9U221 protein_id:CAB60520.1
Cluster 6grp_total > 87      4grp_total > 57      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 125
1 2 3 4 range
A 86.9
(-3)
A 		176.6
(2.2)
A 		190.5
(3)
A 		91.4
(-2.7)
A 		104
B 110.3
(-1.1)
A 		149.8
(1.1)
A 		182.8
(3)
P 		75.9
(-3)
A 		107
C 91.1
(-3)
A 		181.6
(2)
A 		200.5
(3)
M 		97.3
(-2.7)
A 		109
avr 96.1
(-2.5) 		169.3
(1.7) 		191.3
(3) 		88.2
(-3) 		103

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 299
1 2 3 4 5 6 range
A 91.4
(-2.4)
A 		125.8
(-1.5)
A 		63.9
(-3)
A 		138.7
(-1.2)
A 		193.2
(0)
P 		319.1
(3)
P 		255
B 98.1
(-2.1)
A 		82.9
(-2.4)
A 		51.5
(-3)
A 		107.7
(-1.9)
A 		203.4
(0)
P 		350.4
(3)
P 		299
C 173.8
(0.1)
M 		70.1
(-2.8)
A 		64.6
(-3)
A 		133.3
(-1.1)
A 		257.7
(2.4)
P 		278.1
(3)
P 		214
avr 121.1
(-1.6) 		92.9
(-2.2) 		60
(-3) 		126.6
(-1.4) 		218.1
(0.7) 		315.9
(3) 		256
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 31.7
(0)
A 		38.3
(1.1)
A 		49.8
(3)
A 		13.4
(-3)
A 		36
B 35.2
(1.4)
A 		37
(1.8)
A 		42.4
(3)
P 		16.2
(-3)
A 		26
C 30.1
(-1.5)
A 		52.2
(1)
A 		69.9
(3)
M 		16.4
(-3)
A 		54
avr 32.3
(-0.4) 		42.5
(1.2) 		54
(3) 		15.3
(-3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 16.9
(-2.7)
A 		44.8
(-0.1)
A 		13.9
(-3)
A 		35.2
(-1)
A 		58.3
(1.2)
P 		77.7
(3)
P 		64
B 34.1
(-1.9)
A 		27.6
(-2.2)
A 		12.5
(-3)
A 		28.5
(-2.2)
A 		82.6
(0.6)
P 		130.7
(3)
P 		118
C 64.4
(0.8)
M 		21.4
(-2.6)
A 		16.5
(-3)
A 		26.8
(-2.2)
A 		83.4
(2.2)
P 		93.1
(3)
P 		77
avr 38.5
(-1.3) 		31.3
(-1.8) 		14.3
(-3) 		30.2
(-1.9) 		74.8
(1.2) 		100.5
(3) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187853_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6833
Sequence Type Exemplar sequence
Representative Public ID Y56A3A.29 NCBI
Target Description Y56A3A.29 /REP_DB=WormBase Gene ID /WP=CE22594 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q9U221 protein_id:CAB60520.1
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_067159(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067159 NCBI Caenorhabditis elegans Y56A3A.29a (Y56A3A.29) mRNA, complete cds. 11/11 None
SNAP00000035206 ENSEMBL cdna:SNAP chromosome:CEL140:III:11968379:12002816:-1 10/11 None
GENEFINDER00000035222 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11970095:11973965:-1 10/11 None
Y56A3A.29a ENSEMBL cdna:known chromosome:CEL140:III:11971394:11973968:-1 gene:Y56A3A.29 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176633 2 1 NM_067159 187853_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11971494-11973961(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y56A3A.29
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60506 Hypothetical protein Y56A3A.30 [Caenorhabditis elegans] ref|NP_499562.1| Y56A3A.30 [Caenorhabditis elegans] 0.0
blast CAB60521 Hypothetical protein Y56A3A.33 [Caenorhabditis elegans] ref|NP_499565.1| Y56A3A.33 [Caenorhabditis elegans] 0.0
blast AAF39778 Hypothetical protein C51G7.1 [Caenorhabditis elegans] 1.0E-176
blast CAB60520 Hypothetical protein Y56A3A.29a [Caenorhabditis elegans] ref|NP_499560.1| Y56A3A.29a [Caenorhabditis elegans] 1.0E-157
blast CAB60520 Hypothetical protein Y56A3A.29a [Caenorhabditis elegans] ref|NP_499560.1| Y56A3A.29a [Caenorhabditis elegans] 1.0E-131
blast CAE67753 Hypothetical protein CBG13328 [Caenorhabditis briggsae] 1.0E-122
blast CAE56610 Hypothetical protein CBG24365 [Caenorhabditis briggsae] 1.0E-118
Protein Domains
Database ID Description E-Value
Pfam IPR005122 EMBL-EBI Uracil-DNA glycosylase superfamily 4.5E-78
Pfam IPR006055 EMBL-EBI Exonuclease 5.6E-21
Pfam IPR005122 EMBL-EBI Uracil-DNA glycosylase superfamily 2.7E-62
Pfam IPR005122 EMBL-EBI Uracil-DNA glycosylase superfamily 2.7E-62
Sequence
Target Sequence 
>C. ELEGANS:187853_S_AT
caagggcaagcaagtgttcccaccgcccacacaaattttcacaacattcaatcttctgcc
attcgacgagatcagcgtggttatcatcggtcaagacccctatcacgatgataatcaagc
tcacgggctctccttcagtgttcagaagggtgtaaaaccgccgccatcgctgaaaaatat
ctataaagagcttgaatccgatattgaaggcttcaagcggcccgatcacgggaacctgct
cggctggacacgtcagggagtgttcatgttgaatgccacgttgacggttcgggctcacga
ggcgaattctcacgcgaagatcggctggcaaactttcacggacactgttattcggattat
ttcgcgacaatcggagaagcctattgtctttttgttatggggaggatttgctcataagaa
ggaagaactgattgatacaaagaaacatgtagttataaagaccgcccatccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGGGCAAGCAAGTGTTCCCACCG 49 183 285 Antisense
TTCACAACATTCAATCTTCTGCCAT 138 687 322 Antisense
GATCAGCGTGGTTATCATCGGTCAA 379 421 354 Antisense
CATCGGTCAAGACCCCTATCACGAT 242 203 369 Antisense
TGATAATCAAGCTCACGGGCTCTCC 274 565 393 Antisense
AATGCCACGTTGACGGTTCGGGCTC 466 167 556 Antisense
GTTCGGGCTCACGAGGCGAATTCTC 417 443 571 Antisense
GGCGAATTCTCACGCGAAGATCGGC 344 541 585 Antisense
GAAGATCGGCTGGCAAACTTTCACG 62 339 600 Antisense
AACTTTCACGGACACTGTTATTCGG 421 137 615 Antisense
TGTAGTTATAAAGACCGCCCATCCG 199 559 732 Antisense
Sequence Source Affymetrix Proprietary Database