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[180967_at]

Description C55C3.3 /REP_DB=WormBase Gene ID /WP=CE06990 /TR=Q18866 /GB=AAA96170.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 78      4grp_total > 04      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 32.3
(-1.3)
A 		7.8
(-2.9)
A 		6.7
(-3)
A 		95.4
(3)
A 		89
B 10.7
(0.3)
A 		5.4
(-2.2)
A 		16.5
(3)
A 		3.6
(-3)
A 		13
C 10.9
(-2.3)
A 		6.5
(-3)
A 		9.2
(-2.6)
A 		45.7
(3)
A 		39
avr 18
(-1.4) 		6.6
(-3) 		10.8
(-2.4) 		48.2
(3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 15.6
(-2.3)
A 		2.5
(-3)
A 		3.9
(-2.9)
A 		37.4
(-1.1)
A 		48.7
(-0.5)
A 		111.9
(3)
P 		109
B 14.8
(-2.2)
A 		4.8
(-3)
A 		31.2
(-1)
A 		4.8
(-3)
A 		33.9
(-0.8)
A 		83.3
(3)
P 		79
C 3.4
(-3)
A 		30.7
(-0.1)
A 		27.6
(-0.5)
A 		6.3
(-2.7)
A 		48
(1.7)
A 		60.8
(3)
P 		57
avr 11.3
(-3) 		12.7
(-2.9) 		20.9
(-2.2) 		16.2
(-2.6) 		43.5
(-0.4) 		85.3
(3) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 11.7
(1.9)
A 		1.7
(-3)
A 		1.8
(-3)
A 		14
(3)
A 		12
B 3.4
(2.2)
A 		1.3
(-2)
A 		3.8
(3)
A 		0.8
(-3)
A 		3
C 3.6
(-1.2)
A 		1.9
(-3)
A 		3.2
(-1.7)
A 		7.7
(3)
A 		6
avr 6.2
(1.7) 		1.6
(-3) 		2.9
(-1.7) 		7.5
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 2.9
(-2.5)
A 		0.9
(-3)
A 		0.9
(-3)
A 		9.5
(-1)
A 		14.7
(0.1)
A 		27.3
(3)
P 		26
B 5.1
(-2.2)
A 		1.6
(-2.9)
A 		7.6
(-1.7)
A 		1.3
(-3)
A 		13.8
(-0.5)
A 		31.1
(3)
P 		30
C 1.2
(-3)
A 		9.4
(-0.4)
A 		7
(-1.2)
A 		1.3
(-3)
A 		15.5
(1.5)
A 		20.3
(3)
P 		19
avr 3.1
(-3) 		4
(-2.8) 		5.2
(-2.5) 		4
(-2.8) 		14.7
(0) 		26.2
(3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180967_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11221
Sequence Type Exemplar sequence
Representative Public ID C55C3.3 NCBI
Target Description C55C3.3 /REP_DB=WormBase Gene ID /WP=CE06990 /TR=Q18866 /GB=AAA96170.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068446(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068446 NCBI Caenorhabditis elegans C55C3.3 (C55C3.3) mRNA, complete cds. 11/11 None
SNAP00000018113 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5685648:5688240:1 11/11 None
GENEFINDER00000018124 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5683425:5688106:1 10/11 None
C55C3.3 ENSEMBL cdna:known chromosome:CEL140:IV:5685278:5688245:1 gene:C55C3.3 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
chrIV:5683205-5688246(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C55C3.3
Entrez Gene 177347 Entrez gene
SwissProt Q18866 EMBL-EBI
WormBase CE29734 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_500847 C55C3.3 [Caenorhabditis elegans] gb|AAL27231.1| Hypothetical protein C55C3.3 [Caenorhabditis elegans] 0.0
blast T29187 hypothetical protein C55C3.3 - Caenorhabditis elegans 0.0
blast NP_741407 C55C3.6 [Caenorhabditis elegans] gb|AAL27232.1| Hypothetical protein C55C3.6 [Caenorhabditis elegans] 1.0E-74
blast CAE60311 Hypothetical protein CBG03902 [Caenorhabditis briggsae] 6.0E-62
Protein Domains
Database ID Description E-Value
scop a.2.8.Eukaryotic DNA topoisomerase I, dispensable insert domain All alpha proteins; Long alpha-hairpin; Eukaryotic DNA topoisomerase I, dispensable insert domain; Eukaryotic DNA topoisomerase I, dispensable insert domain 1.39999997615814
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500847.2 1 7-26
C55C3.3 1 7-26
GENEFINDER00000018124 1 249-268
Sequence
Target Sequence 
>C. ELEGANS:180967_AT
caagactcgaagttcaagccggcgcaggctccaaacccaaagcctgagcgcgttgagagg
ggctccgcggagcaaagcatgtcggagccgttgtcgatttctagagttgcatttggctcg
ccgatcgctccgaaaccacggccatcgccactccaagctccgcttcttgagacgttggct
actccaccgacaatcgacgctcctaccgctgcaatcgagacggcaatcgagagaagcgcg
gaattttcgtcatctcactcgatggatccttccaactcacttttcaaagtgtgcagatgc
cgtaagaaggatcgaggtggtctattgattgattcggatgctgctgtctatgatccatct
atcaaggcaaacatcccggcgacgaaggtgttgccggtcaacttcaataagtataacccg
ccgaatttgctggatcccgtcactggagggagctatgaaatcttggagctccccgaaacc
ttcttcacgccactcgaaaatagtccagacacctacttgaccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGACTCGAAGTTCAAGCCGGCGC 297 185 1777 Antisense
ACCCAAAGCCTGAGCGCGTTGAGAG 194 91 1811 Antisense
ATGTCGGAGCCGTTGTCGATTTCTA 27 49 1855 Antisense
TCTAGAGTTGCATTTGGCTCGCCGA 355 609 1876 Antisense
CAAGCTCCGCTTCTTGAGACGTTGG 95 185 1930 Antisense
TCCTACCGCTGCAATCGAGACGGCA 459 591 1977 Antisense
GAAGCGCGGAATTTTCGTCATCTCA 551 343 2009 Antisense
TCATCTCACTCGATGGATCCTTCCA 493 621 2026 Antisense
ACATCCCGGCGACGAAGGTGTTGCC 628 105 2147 Antisense
ATAACCCGCCGAATTTGCTGGATCC 550 23 2189 Antisense
AATAGTCCAGACACCTACTTGACCG 304 171 2275 Antisense
Sequence Source Affymetrix Proprietary Database