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[183669_s_at]

Description C29F9.9 /REP_DB=WormBase Gene ID /WP=CE08457 /TR=Q9TZC2 /GB=AAC68750.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 26      4grp_total > 27      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 70.5
(-1.3)
A 		105.4
(3)
A 		56.7
(-3)
A 		88.6
(0.9)
A 		49
B 45
(-3)
A 		80.3
(3)
A 		75.7
(2.2)
A 		80.3
(3)
A 		35
C 53.1
(0.6)
A 		64.2
(1.9)
A 		20.9
(-3)
A 		74.3
(3)
A 		53
avr 56.2
(-2) 		83.3
(3) 		51.1
(-3) 		81.1
(2.6) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 70.7
(3)
A 		51.1
(1.1)
A 		8.3
(-3)
A 		15.2
(-2.3)
A 		27.7
(-1.1)
A 		33.5
(-0.6)
A 		62
B 31.5
(-1.1)
A 		39.5
(-0.1)
A 		19.3
(-2.6)
A 		64.9
(3)
A 		49.1
(1)
A 		16.4
(-3)
A 		49
C 51.5
(1.5)
A 		58.4
(2.3)
A 		56
(2)
A 		8.1
(-3)
A 		7.9
(-3)
A 		65.5
(3)
A 		58
avr 51.2
(3) 		49.7
(2.6) 		27.9
(-3) 		29.4
(-2.6) 		28.2
(-2.9) 		38.5
(-0.3) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 25.7
(3)
A 		22.9
(1.7)
A 		14.8
(-2.1)
A 		13
(-3)
A 		13
B 14.3
(-3)
A 		19.8
(3)
A 		17.5
(0.5)
A 		17.1
(0.1)
A 		6
C 17.6
(2.6)
A 		18.4
(3)
A 		7.3
(-3)
A 		12.5
(-0.2)
A 		11
avr 19.2
(2) 		20.4
(3) 		13.2
(-3) 		14.2
(-2.2) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 13
(1.1)
A 		18.2
(3)
A 		1.8
(-3)
A 		3.8
(-2.3)
A 		8.3
(-0.6)
A 		8.2
(-0.7)
A 		16
B 11
(-0.5)
A 		13.1
(0.3)
A 		4.7
(-3)
A 		17.2
(1.9)
A 		19.9
(3)
A 		6.1
(-2.4)
A 		15
C 19.1
(2.2)
A 		17.8
(1.8)
A 		14.2
(0.7)
A 		1.6
(-3)
A 		2.5
(-2.7)
A 		21.9
(3)
A 		20
avr 14.4
(1.7) 		16.4
(3) 		6.9
(-3) 		7.5
(-2.6) 		10.2
(-0.9) 		12.1
(0.3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183669_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8244
Sequence Type Exemplar sequence
Representative Public ID C29F9.9 NCBI
Target Description C29F9.9 /REP_DB=WormBase Gene ID /WP=CE08457 /TR=Q9TZC2 /GB=AAC68750.1 /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_064739(11), NM_064740(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064739 NCBI Caenorhabditis elegans C29F9.8 (C29F9.8) mRNA, complete cds. 11/11 A 
NM_064740 NCBI Caenorhabditis elegans C29F9.9 (C29F9.9) mRNA, complete cds. 11/11 None
GENEFINDER00000042038 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:95127:110748:-1 10/11 None
SNAP00000042027 ENSEMBL cdna:SNAP chromosome:CEL140:III:97236:99475:-1 10/11 None
C29F9.8 ENSEMBL cdna:known chromosome:CEL140:III:95393:97725:-1 gene:C29F9.8 11/11 A 
C29F9.9 ENSEMBL cdna:known chromosome:CEL140:III:98397:98921:-1 gene:C29F9.9 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:98396-98921(-) 100.0 100.0
chrIII:97200-97725(-) 100.0 100.0
Public Domain and Genome References
Gene Title

Ensembl C29F9.8
C29F9.9
Entrez Gene 183024 Entrez gene
183025 Entrez gene
SwissProt Q9TZC3 EMBL-EBI
Q9TZC2 EMBL-EBI
WormBase CE08456 Wormbase
CE08457 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC68752 Hypothetical protein C29F9.11 [Caenorhabditis elegans] ref|NP_497143.1| C29F9.11 [Caenorhabditis elegans] 1.0E-154
blast AAC68749 Hypothetical protein C29F9.8 [Caenorhabditis elegans] ref|NP_497140.1| C29F9.8 [Caenorhabditis elegans] 1.0E-145
blast AAC68749 Hypothetical protein C29F9.8 [Caenorhabditis elegans] ref|NP_497140.1| C29F9.8 [Caenorhabditis elegans] 1.0E-115
blast AAC68933 Hypothetical protein T12B5.8 [Caenorhabditis elegans] ref|NP_497299.2| T12B5.8 [Caenorhabditis elegans] 1.0E-108
blast AAC68750 Hypothetical protein C29F9.9 [Caenorhabditis elegans] ref|NP_497141.1| C29F9.9 [Caenorhabditis elegans] 1.0E-69
blast AAC68749 Hypothetical protein C29F9.8 [Caenorhabditis elegans] ref|NP_497140.1| C29F9.8 [Caenorhabditis elegans] 2.0E-64
blast AAC68750 Hypothetical protein C29F9.9 [Caenorhabditis elegans] ref|NP_497141.1| C29F9.9 [Caenorhabditis elegans] 5.0E-59
blast AAC68749 Hypothetical protein C29F9.8 [Caenorhabditis elegans] ref|NP_497140.1| C29F9.8 [Caenorhabditis elegans] 6.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 2.8E-57
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 5.4E-13
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.0E-4
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.7E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497140.1 1 132-154
C29F9.8 1 132-154
GENEFINDER00000042038 2 729-751,896-913
Sequence
Target Sequence 
>C. ELEGANS:183669_S_AT
atgaacaaatttcagcactccaccactgacctacctccaaagccagctagacttctgggc
ttcctacctagaagaaaacctccgaaggttggtagcgctcttcggagccgacgctgcgcg
gcacctcgcgacactatagctgtgtgcggggcgtggcgagagtgctttggcttccctgca
aactacagccaaccccagttctactcaactattgaagaatactctaatcacacttctgtc
gtgtatgttctttataacacatgtgatggagttgttaaggttttccttacaatagccttt
ccagcacttaccttttttgctacagcagcagctgaaatacgtcagagaagtccgtcggaa
gagctcggcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAACAAATTTCAGCACTCCACCA 326 45 13 Antisense
CTACCTCCAAAGCCAGCTAGACTTC 417 225 43 Antisense
ACTTCTGGGCTTCCTACCTAGAAGA 533 103 63 Antisense
ACCTCCGAAGGTTGGTAGCGCTCTT 310 75 90 Antisense
CACCTCGCGACACTATAGCTGTGTG 8 203 134 Antisense
TTTGGCTTCCCTGCAAACTACAGCC 181 667 178 Antisense
CAACCCCAGTTCTACTCAACTATTG 589 187 202 Antisense
GAATACTCTAATCACACTTCTGTCG 231 327 229 Antisense
ACTTCTGTCGTGTATGTTCTTTATA 596 103 244 Antisense
CACTTACCTTTTTTGCTACAGCAGC 315 197 317 Antisense
AGAAGTCCGTCGGAAGAGCTCGGCG 635 73 358 Antisense
Sequence Source Affymetrix Proprietary Database