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[178330_at]

Description C54C8.2 /REP_DB=WormBase Gene ID /WP=CE08965 /TR=O02230 /GB=CAB05464.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 20      4grp_total > 48      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 345
1 2 3 4 range
A 8
(-3)
A 		158.4
(-0.3)
P 		346.4
(3)
P 		46.7
(-2.3)
A 		338
B 1.5
(-3)
A 		191.5
(0.7)
P 		306.3
(3)
P 		4.1
(-2.9)
A 		305
C 3.9
(-3)
A 		205.5
(0.6)
P 		342.9
(3)
P 		17.7
(-2.8)
A 		339
avr 4.5
(-3) 		185.1
(0.3) 		331.9
(3) 		22.8
(-2.7) 		327

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 17.6
(-1.9)
A 		36.4
(0.2)
A 		7.9
(-3)
A 		61.1
(3)
A 		11.6
(-2.6)
A 		43.2
(1)
A 		53
B 4.6
(-3)
A 		63.7
(3)
A 		32.6
(-0.2)
A 		25.4
(-0.9)
A 		4.9
(-3)
A 		13.9
(-2.1)
A 		59
C 5.1
(-2.8)
A 		48.1
(1.6)
A 		62.1
(3)
A 		41.7
(0.9)
A 		3.5
(-3)
A 		19.6
(-1.4)
A 		59
avr 9.1
(-2.7) 		49.4
(3) 		34.2
(0.9) 		42.7
(2.1) 		6.7
(-3) 		25.6
(-0.3) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 119
1 2 3 4 range
A 2.9
(-3)
A 		34.4
(-0.8)
P 		90.5
(3)
P 		6.8
(-2.7)
A 		88
B 0.5
(-3)
A 		47.3
(1)
P 		71
(3)
P 		0.9
(-3)
A 		71
C 1.3
(-3)
A 		59.1
(-0.1)
P 		119.5
(3)
P 		3
(-2.9)
A 		118
avr 1.6
(-3) 		46.9
(-0) 		93.7
(3) 		3.6
(-2.9) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 3.2
(-2.3)
A 		12.9
(1.9)
A 		1.7
(-3)
A 		15.5
(3)
A 		3.5
(-2.2)
A 		10.5
(0.8)
A 		14
B 1.6
(-3)
A 		21.2
(3)
A 		7.9
(-1.1)
A 		6.7
(-1.4)
A 		2
(-2.9)
A 		5.2
(-1.9)
A 		20
C 1.9
(-2.7)
A 		14.7
(2.6)
A 		15.8
(3)
A 		8.4
(-0)
A 		1.1
(-3)
A 		6.6
(-0.8)
A 		15
avr 2.2
(-3) 		16.3
(3) 		8.5
(-0.3) 		10.2
(0.4) 		2.2
(-3) 		7.4
(-0.8) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178330_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2275
Sequence Type Exemplar sequence
Representative Public ID C54C8.2 NCBI
Target Description C54C8.2 /REP_DB=WormBase Gene ID /WP=CE08965 /TR=O02230 /GB=CAB05464.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_060756(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060756 NCBI Caenorhabditis elegans C54C8.2 (C54C8.2) mRNA, complete cds. 11/11 None
SNAP00000034206 ENSEMBL cdna:SNAP chromosome:CEL140:I:12450917:12454589:1 11/11 None
GENEFINDER00000034219 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12453357:12454569:1 11/11 None
C54C8.2 ENSEMBL cdna:known chromosome:CEL140:I:12452898:12454589:1 gene:C54C8.2 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
chrI:12452828-12454520(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C54C8.2
Entrez Gene 183769 Entrez gene
SwissProt O02230 EMBL-EBI
WormBase CE08965 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05464 Hypothetical protein C54C8.2 [Caenorhabditis elegans] ref|NP_493157.1| C54C8.2 [Caenorhabditis elegans] 0.0
blast CAB05464 Hypothetical protein C54C8.2 [Caenorhabditis elegans] ref|NP_493157.1| C54C8.2 [Caenorhabditis elegans] 1.0E-142
blast CAB04495 Hypothetical protein F56H6.6 [Caenorhabditis elegans] ref|NP_493107.1| F56H6.6 [Caenorhabditis elegans] 1.0E-135
blast CAE61403 Hypothetical protein CBG05262 [Caenorhabditis briggsae] 1.0E-118
blast CAE61403 Hypothetical protein CBG05262 [Caenorhabditis briggsae] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.0064
Sequence
Target Sequence 
>C. ELEGANS:178330_AT
gtgttggttgttagacgtttcgagaccaacgaaaatgagctaccaatgagctttggggat
cttgaggagggaattgaaaatcataaaacattccagttccatcacaaattctttttcgtt
ggtcatcaaattcccaacttgatggaatggttcgaaagatctcacgcctctaatgatgtg
gtggcatgggagattccatacactggaaatgattgggaagttcaaatcattcttcaccgc
aacgatccatataatgtagagtattttccttcgcgagtcaaggatatgcagtctttgatc
tacaagttatgccgtgcaaactacaccttcaatttgctctctcatgtgttcaatgttcat
aaaggaatcaaagaagatgataccatgtactcgaaggttgtgactgctcacacaaaacgg
caaggaagattgaggacgctttctcgatatgtcactgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTTGGTTGTTAGACGTTTCGAGA 266 481 550 Antisense
AACATTCCAGTTCCATCACAAATTC 537 137 636 Antisense
CACAAATTCTTTTTCGTTGGTCATC 696 193 652 Antisense
AATGGTTCGAAAGATCTCACGCCTC 669 161 695 Antisense
GATCTCACGCCTCTAATGATGTGGT 216 419 707 Antisense
TGTAGAGTATTTTCCTTCGCGAGTC 462 559 804 Antisense
TTTGATCTACAAGTTATGCCGTGCA 534 665 843 Antisense
ATGCCGTGCAAACTACACCTTCAAT 119 41 858 Antisense
TTGCTCTCTCATGTGTTCAATGTTC 599 703 883 Antisense
GTACTCGAAGGTTGTGACTGCTCAC 518 459 936 Antisense
GACGCTTTCTCGATATGTCACTGAA 620 379 984 Antisense
Sequence Source Affymetrix Proprietary Database