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[172164_x_at]

Description C06C6.9 /REP_DB=WormBase Gene ID /WP=CE17373 /TR=O62036 /GB=CAB07560.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 85      4grp_total > 17      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 9.1
(3)
A 		4.8
(-3)
A 		5.5
(-2)
A 		5.4
(-2.2)
A 		4
B 3.2
(-3)
A 		19.6
(1.5)
A 		25
(3)
A 		10.7
(-0.9)
A 		22
C 7.7
(-2.7)
A 		15.3
(-2.1)
A 		4.7
(-3)
A 		74.7
(3)
A 		70
avr 6.7
(-3) 		13.2
(-1.3) 		11.7
(-1.7) 		30.3
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 14.1
(-2.9)
A 		33.3
(-0.4)
A 		13.3
(-3)
A 		59.9
(3)
A 		14.2
(-2.9)
A 		59.9
(3)
A 		47
B 7.4
(-3)
A 		15.8
(0.1)
A 		15.2
(-0.1)
A 		13.5
(-0.8)
A 		11.7
(-1.4)
A 		23.8
(3)
A 		16
C 7.8
(-2.7)
A 		5.1
(-3)
A 		6.7
(-2.8)
A 		48.7
(2.4)
A 		53.3
(3)
A 		23.3
(-0.7)
A 		48
avr 9.8
(-3) 		18.1
(-1.4) 		11.7
(-2.6) 		40.7
(3) 		26.4
(0.2) 		35.7
(2) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 3.3
(3)
A 		1
(-2.5)
A 		1.4
(-1.6)
A 		0.8
(-3)
A 		3
B 1
(-3)
A 		4.8
(1.8)
A 		5.8
(3)
A 		2.3
(-1.4)
A 		5
C 2.6
(-2.5)
A 		4.4
(-1.5)
A 		1.6
(-3)
A 		12.6
(3)
A 		11
avr 2.3
(-3) 		3.4
(-0.7) 		2.9
(-1.8) 		5.2
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 2.6
(-3)
A 		11.9
(1.4)
A 		2.9
(-2.9)
A 		15.2
(3)
A 		4.3
(-2.2)
A 		14.6
(2.7)
A 		13
B 2.6
(-3)
A 		5.3
(-0.4)
A 		3.7
(-2)
A 		3.6
(-2)
A 		4.8
(-0.9)
A 		8.9
(3)
A 		6
C 2.9
(-2.5)
A 		1.6
(-3)
A 		1.7
(-3)
A 		9.8
(0.2)
A 		17.2
(3)
A 		7.8
(-0.6)
A 		16
avr 2.7
(-3) 		6.3
(-0.2) 		2.8
(-2.9) 		9.5
(2.3) 		8.8
(1.8) 		10.4
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172164_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13179
Sequence Type Exemplar sequence
Representative Public ID C06C6.9 NCBI
Target Description C06C6.9 /REP_DB=WormBase Gene ID /WP=CE17373 /TR=O62036 /GB=CAB07560.1 /SUBMIT=HINXTON /CHR=5 /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_074612(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074612 NCBI Caenorhabditis elegans C06C6.9 (C06C6.9) mRNA, complete cds. 11/11 None
SNAP00000040509 ENSEMBL cdna:SNAP chromosome:CEL140:V:15998797:15999328:-1 11/11 None
GENEFINDER00000040517 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15998244:15999328:-1 11/11 None
C06C6.9 ENSEMBL cdna:known chromosome:CEL140:V:15998797:15999328:-1 gene:C06C6.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_074613 3/11 Cross Hyb Matching Probes A 
NM_074609 2/11 Cross Hyb Matching Probes A 
SNAP00000040510 3/11 Cross Hyb Matching Probes None
GENEFINDER00000040520 2/11 Cross Hyb Matching Probes None
SNAP00000043431 2/11 Cross Hyb Matching Probes None
GENEFINDER00000043439 2/11 Cross Hyb Matching Probes None
F36G9.15 2/11 Cross Hyb Matching Probes A 
C06C6.8 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15999779-16000311(+) 90.97 90.97
chrV:15998796-15999328(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C06C6.9
Entrez Gene 182311 Entrez gene
SwissProt O62036 EMBL-EBI
WormBase CE17373 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07560 Hypothetical protein C06C6.9 [Caenorhabditis elegans] ref|NP_507013.1| C06C6.9 [Caenorhabditis elegans] 2.0E-48
blast CAB07560 Hypothetical protein C06C6.9 [Caenorhabditis elegans] ref|NP_507013.1| C06C6.9 [Caenorhabditis elegans] 3.0E-48
blast CAB07559 Hypothetical protein C06C6.8 [Caenorhabditis elegans] ref|NP_507014.1| C06C6.8 [Caenorhabditis elegans] 8.0E-43
blast CAB07559 Hypothetical protein C06C6.8 [Caenorhabditis elegans] ref|NP_507014.1| C06C6.8 [Caenorhabditis elegans] 9.0E-43
blast AAC26298 Hypothetical protein Y57G7A.3a [Caenorhabditis elegans] ref|NP_001022484.1| Y57G7A.3a [Caenorhabditis elegans] 1.0E-37
blast AAC26298 Hypothetical protein Y57G7A.3a [Caenorhabditis elegans] ref|NP_001022484.1| Y57G7A.3a [Caenorhabditis elegans] 2.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR009564 EMBL-EBI Protein of unknown function DUF1179 1.0E-72
Pfam IPR009564 EMBL-EBI Protein of unknown function DUF1179 2.0E-73
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507013.1 1 4-26
C06C6.9 1 4-26
SNAP00000040509 1 4-26
GENEFINDER00000040517 1 4-26
Sequence
Target Sequence 
>C. ELEGANS:172164_X_AT
gagcattactctctatttcggaccatttcttttgctggtcgtctcgattgtaaattgtca
gtcaaaaaagaagtttaaagacgatgaaagagccaacctagtcccccgaaacgccccagt
ttctccaaaccctgtaaaggagacgtccgcgcagacttgcccgactacacagatcccgcc
agcaaaaactccaatggagaggagtggaagtgcggttgaggacactcttgcaaatgtgaa
atctttgccgccggagaagtcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCATTACTCTCTATTTCGGACCA 160 387 39 Antisense
CTATTTCGGACCATTTCTTTTGCTG 448 221 51 Antisense
TTTGCTGGTCGTCTCGATTGTAAAT 153 669 69 Antisense
GTCGTCTCGATTGTAAATTGTCAGT 529 471 76 Antisense
GACGATGAAAGAGCCAACCTAGTCC 587 377 118 Antisense
ACCCTGTAAAGGAGACGTCCGCGCA 84 1 167 Antisense
TGTAAAGGAGACGTCCGCGCAGACT 326 559 171 Antisense
ATCCCGCCAGCAAAAACTCCAATGG 70 39 211 Antisense
GGAGAGGAGTGGAAGTGCGGTTGAG 185 519 234 Antisense
GTGCGGTTGAGGACACTCTTGCAAA 401 479 248 Antisense
GAAATCTTTGCCGCCGGAGAAGTCG 7 353 276 Antisense
Sequence Source Affymetrix Proprietary Database