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[180102_at]

Description C55C2.4 /REP_DB=WormBase Gene ID /WP=CE09027 /TR=O01827 /GB=AAB54196.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 99      4grp_total > 42      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 38.7
(-3)
A 		61.7
(0.6)
A 		77
(3)
A 		44.7
(-2.1)
A 		38
B 48
(-0.8)
A 		56.4
(3)
A 		43.1
(-3)
A 		46.3
(-1.6)
A 		13
C 29.3
(-2.2)
A 		68.6
(3)
A 		23.1
(-3)
A 		37.3
(-1.1)
A 		46
avr 38.7
(-3) 		62.2
(3) 		47.7
(-0.7) 		42.8
(-2) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 70.6
(2.7)
A 		40.5
(0.1)
A 		61
(1.9)
P 		4.7
(-3)
A 		61.3
(1.9)
P 		74.3
(3)
P 		70
B 55.3
(2.9)
A 		37.6
(-3)
A 		46.4
(-0.1)
A 		55.6
(3)
P 		50.1
(1.2)
P 		41.7
(-1.6)
A 		18
C 21.2
(-3)
A 		42.9
(0.7)
P 		25.4
(-2.3)
A 		56.6
(3)
A 		54.7
(2.7)
P 		38.5
(-0.1)
P 		35
avr 49
(0.7) 		40.3
(-2.5) 		44.3
(-1.1) 		39
(-3) 		55.4
(3) 		51.5
(1.6) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 14.1
(0.4)
A 		13.4
(0)
A 		20.1
(3)
A 		6.5
(-3)
A 		14
B 15.3
(3)
A 		13.9
(1.4)
A 		10
(-2.9)
A 		9.9
(-3)
A 		5
C 9.7
(-1.5)
A 		19.7
(3)
A 		8
(-2.2)
A 		6.3
(-3)
A 		13
avr 13
(1) 		15.7
(3) 		12.7
(0.8) 		7.6
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 13
(1.1)
A 		14.4
(1.6)
A 		13.3
(1.2)
P 		1.2
(-3)
A 		18.5
(3)
P 		18.1
(2.9)
P 		17
B 19.2
(2.3)
A 		12.5
(-2.2)
A 		11.3
(-3)
A 		14.7
(-0.7)
P 		20.3
(3)
P 		15.5
(-0.2)
A 		9
C 7.9
(-2.3)
A 		13.1
(0.5)
P 		6.5
(-3)
A 		11.4
(-0.4)
A 		17.7
(3)
P 		12.9
(0.4)
P 		11
avr 13.4
(-0.3) 		13.3
(-0.4) 		10.4
(-2.2) 		9.1
(-3) 		18.8
(3) 		15.5
(1) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180102_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.53
Sequence Type Exemplar sequence
Representative Public ID C55C2.4 NCBI
Target Description C55C2.4 /REP_DB=WormBase Gene ID /WP=CE09027 /TR=O01827 /GB=AAB54196.1 /SUBMIT=ST.LOUIS /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_058597(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058597 NCBI Caenorhabditis elegans C55C2.4 (C55C2.4) mRNA, complete cds. 11/11 None
SNAP00000032492 ENSEMBL cdna:SNAP chromosome:CEL140:I:2558358:2561945:1 9/11 None
GENEFINDER00000032498 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2558638:2561945:1 11/11 None
C55C2.4 ENSEMBL cdna:known chromosome:CEL140:I:2558301:2560111:1 gene:C55C2.4 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:2558510-2560111(+) 92.22 100.0
Public Domain and Genome References
Gene Title
Ensembl C55C2.4
Entrez Gene 183850 Entrez gene
SwissProt O01827 EMBL-EBI
WormBase CE36639 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB54193 Hypothetical protein C55C2.3 [Caenorhabditis elegans] ref|NP_490999.2| C55C2.3 [Caenorhabditis elegans] 1.0E-102
blast AAB54196 Hypothetical protein C55C2.4 [Caenorhabditis elegans] ref|NP_490998.2| C55C2.4 [Caenorhabditis elegans] 3.0E-91
blast AAB54193 Hypothetical protein C55C2.3 [Caenorhabditis elegans] ref|NP_490999.2| C55C2.3 [Caenorhabditis elegans] 5.0E-86
blast AAB54196 Hypothetical protein C55C2.4 [Caenorhabditis elegans] ref|NP_490998.2| C55C2.4 [Caenorhabditis elegans] 6.0E-86
blast AAB54196 Hypothetical protein C55C2.4 [Caenorhabditis elegans] ref|NP_490998.2| C55C2.4 [Caenorhabditis elegans] 2.0E-59
blast CAE60535 Hypothetical protein CBG04162 [Caenorhabditis briggsae] 4.0E-27
blast CAE60535 Hypothetical protein CBG04162 [Caenorhabditis briggsae] 1.0E-23
blast CAE60535 Hypothetical protein CBG04162 [Caenorhabditis briggsae] 1.0E-20
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490998.2 2 140-162,189-211
C55C2.4 2 140-162,189-211
GENEFINDER00000032498 4 132-154,181-203,408-430,457-479
Sequence
Target Sequence 
>C. ELEGANS:180102_AT
gtactgccaggctaaaagacacttgccacaagcaatcaatagttggattcctccatcatt
tctgaacgggaattacacaggggatttgacaggagattctccatataatgacgattacca
cctggcgaaaaacaagggagatgtgtttatggccgcctatcgaactcataaaaacaacaa
attggctgaaaaactcaagacatccactgattttccatacaaatcggatttactcaaatt
ctaccgtctatctgcctgtattgtacttttgagtctggcattgagtctgcaaaatgttct
ccgaattttctatgagaatcaggaagaggatgatgatgacgaagattatgatgatgagga
agaggatcagggaaatggtggatatgggttctacgctgaaatctacttgtgtgtggtctt
tggcctgtccttgatcactattttgatattgattaaggaacttgaaaaaatattatttct
aatctacatgagccttcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACTGCCAGGCTAAAAGACACTTG 640 459 204 Antisense
ATTCCTCCATCATTTCTGAACGGGA 468 5 250 Antisense
TAATGACGATTACCACCTGGCGAAA 123 637 309 Antisense
GTTTATGGCCGCCTATCGAACTCAT 121 449 348 Antisense
AGACATCCACTGATTTTCCATACAA 258 71 401 Antisense
TACTCAAATTCTACCGTCTATCTGC 663 645 434 Antisense
CGTCTATCTGCCTGTATTGTACTTT 683 245 448 Antisense
GAGTCTGCAAAATGTTCTCCGAATT 614 399 486 Antisense
TGGTGGATATGGGTTCTACGCTGAA 550 553 579 Antisense
TACTTGTGTGTGGTCTTTGGCCTGT 149 645 607 Antisense
ATTTCTAATCTACATGAGCCTTCTA 178 15 678 Antisense
Sequence Source Affymetrix Proprietary Database