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[187378_at]

Description C09F5.3 /REP_DB=WormBase Gene ID /WP=CE01775 /TR=SW:Q09452 /GB=AAA64508.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 46      4grp_total > 18      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 6.1
(-3)
A 		11
(-2)
A 		8.2
(-2.6)
A 		34.3
(3)
A 		28
B 8.5
(0.1)
A 		11.1
(3)
A 		8.7
(0.3)
A 		5.8
(-3)
A 		5
C 6.4
(-2.9)
A 		11.1
(-1.8)
A 		6
(-3)
A 		31.8
(3)
A 		26
avr 7
(-3) 		11.1
(-1.6) 		7.6
(-2.8) 		24
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 7.5
(1.3)
A 		8.6
(3)
A 		7.2
(0.8)
A 		4.8
(-3)
A 		7.4
(1.1)
A 		6.3
(-0.6)
A 		4
B 5.3
(-1.6)
A 		6.1
(1.2)
A 		6.6
(3)
A 		5.4
(-1.2)
A 		4.9
(-3)
A 		5.8
(0.2)
A 		2
C 8.5
(-1.1)
A 		17
(3)
A 		7.1
(-1.8)
A 		8.7
(-1)
A 		4.7
(-3)
A 		15.2
(2.1)
A 		12
avr 7.1
(-1.3) 		10.6
(3) 		7
(-1.4) 		6.3
(-2.3) 		5.7
(-3) 		9.1
(1.2) 		5
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 2.2
(-2.8)
A 		2.4
(-2.4)
A 		2.1
(-3)
A 		5
(3)
A 		3
B 2.7
(3)
A 		2.7
(3)
A 		2
(0.2)
A 		1.2
(-3)
A 		2
C 2.1
(-3)
A 		3.2
(-1)
A 		2.1
(-3)
A 		5.4
(3)
A 		3
avr 2.3
(-2.3) 		2.8
(-0.7) 		2.1
(-3) 		3.9
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 1.4
(-2.4)
A 		3.1
(3)
A 		1.6
(-1.7)
A 		1.2
(-3)
A 		2.2
(0.2)
A 		1.5
(-2.1)
A 		2
B 1.9
(0.7)
A 		2
(1.5)
A 		1.6
(-1.5)
A 		1.4
(-3)
A 		2
(1.5)
A 		2.2
(3)
A 		1
C 3.1
(-0.4)
A 		5.2
(3)
A 		1.8
(-2.5)
A 		1.8
(-2.5)
A 		1.5
(-3)
A 		5.1
(2.8)
A 		4
avr 2.1
(-1.1) 		3.4
(3) 		1.7
(-2.4) 		1.5
(-3) 		1.9
(-1.7) 		2.9
(1.4) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187378_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8119
Sequence Type Exemplar sequence
Representative Public ID C09F5.3 NCBI
Target Description C09F5.3 /REP_DB=WormBase Gene ID /WP=CE01775 /TR=SW:Q09452 /GB=AAA64508.1 /SUBMIT=ST.LOUIS /CHR=3 /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_064832(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064832 NCBI Caenorhabditis elegans C09F5.3 (C09F5.3) mRNA, complete cds. 11/11 None
SNAP00000035440 ENSEMBL cdna:SNAP chromosome:CEL140:III:662800:665152:-1 10/11 None
GENEFINDER00000035442 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:662800:664646:-1 10/11 None
C09F5.3 ENSEMBL cdna:known chromosome:CEL140:III:662885:666260:-1 gene:C09F5.3 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
chrIII:662884-666260(-) 98.18 100.0
Public Domain and Genome References
Gene Title
Ensembl C09F5.3
Entrez Gene 182454 Entrez gene
SwissProt Q09452 EMBL-EBI
WormBase CE01775 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA64508 Hypothetical protein C09F5.3 [Caenorhabditis elegans] ref|NP_497233.1| C09F5.3 [Caenorhabditis elegans] sp|Q09452|YQ23_CAEEL Hypothetical zinc finger protein C09F5.3 in chromosome III 0.0
blast AAA64508 Hypothetical protein C09F5.3 [Caenorhabditis elegans] ref|NP_497233.1| C09F5.3 [Caenorhabditis elegans] sp|Q09452|YQ23_CAEEL Hypothetical zinc finger protein C09F5.3 in chromosome III 1.0E-147
blast AAA64508 Hypothetical protein C09F5.3 [Caenorhabditis elegans] ref|NP_497233.1| C09F5.3 [Caenorhabditis elegans] sp|Q09452|YQ23_CAEEL Hypothetical zinc finger protein C09F5.3 in chromosome III 1.0E-146
blast CAE69209 Hypothetical protein CBG15249 [Caenorhabditis briggsae] 7.0E-32
blast CAE69209 Hypothetical protein CBG15249 [Caenorhabditis briggsae] 1.0E-19
blast XP_539898 PREDICTED: similar to zinc finger protein 425 [Canis familiaris] 1.0E-16
blast EAL26482 GA17308-PA [Drosophila pseudoobscura] 7.0E-16
blast XP_695072 PREDICTED: similar to mKIAA0760 protein [Danio rerio] 3.0E-14
blast XP_695011 PREDICTED: similar to mKIAA0760 protein [Danio rerio] 3.0E-14
Sequence
Target Sequence 
>C. ELEGANS:187378_AT
gtaacccagcacatctgctcaatatgtgactcggcattcccgtcacctcaagctcaatca
gtccactttgcggaagcccataaaaagtactcctgtactaattgtgattttgagacggaa
aatgagaaaactttcaaggaacattcaaaacaacattcccggcaactaatcatgtatgga
tgtgctctttgtgcaacttcctaccccagtcaactgcatttaataacccacgttcaaatg
tcacatgatcaagaaaccttctacccaccatccttaccaattccaacacctccatcccca
aaatcgactccaaagcagcgagtcctccagtgctccgtgtgcgatgaatcagtactggga
gaagacggcctagatgagcatcggcttcgcaagcactgcaagtttcgtggagcactgtct
ccgtcactcaaaggatcatgcgcaccactgcccagtgtgtcgacagagtctccgctccga
ttctcaaattcacgcgcattgtgcctatcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAACCCAGCACATCTGCTCAATAT 56 463 550 Antisense
TCAATATGTGACTCGGCATTCCCGT 568 633 568 Antisense
TCAAGCTCAATCAGTCCACTTTGCG 59 633 597 Antisense
ACAACATTCCCGGCAACTAATCATG 695 111 699 Antisense
CAGTGCTCCGTGTGCGATGAATCAG 569 207 877 Antisense
GACGGCCTAGATGAGCATCGGCTTC 221 377 913 Antisense
GGCTTCGCAAGCACTGCAAGTTTCG 247 537 932 Antisense
AAGTTTCGTGGAGCACTGTCTCCGT 362 157 949 Antisense
ACTGTCTCCGTCACTCAAAGGATCA 315 93 963 Antisense
CACTGCCCAGTGTGTCGACAGAGTC 194 199 995 Antisense
AATTCACGCGCATTGTGCCTATCAT 149 177 1036 Antisense
Sequence Source Affymetrix Proprietary Database