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[172436_x_at]

Description C04F12.6 /REP_DB=WormBase Gene ID /WP=CE19679 /TR=Q9U3R8 /GB=CAB62798.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 98      4grp_total > 32      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 99
1 2 3 4 range
A 7.7
(-3)
A 		64.3
(1.8)
A 		77.9
(3)
A 		56
(1.1)
A 		70
B 23.2
(-3)
A 		62.4
(1.1)
A 		80.7
(3)
A 		58.7
(0.7)
A 		58
C 50.7
(-1.9)
A 		38.1
(-3)
A 		65.6
(-0.6)
A 		106.2
(3)
A 		68
avr 27.2
(-3) 		54.9
(0.5) 		74.7
(3) 		73.6
(2.9) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 88.6
(-2)
A 		64.6
(-3)
A 		65.3
(-3)
A 		65.8
(-2.9)
P 		149.2
(0.6)
P 		204
(3)
P 		139
B 49.6
(-2.5)
A 		36.3
(-3)
A 		73.3
(-1.6)
A 		44.4
(-2.7)
A 		144.4
(1.1)
P 		196.3
(3)
P 		160
C 26.2
(-3)
A 		71.2
(-1.3)
P 		55.2
(-1.9)
A 		75.2
(-1.1)
P 		156.2
(1.9)
P 		184.8
(3)
P 		159
avr 54.8
(-3) 		57.4
(-2.9) 		64.6
(-2.6) 		61.8
(-2.7) 		149.9
(1.1) 		195
(3) 		140
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 2.8
(-3)
A 		14
(0.8)
A 		20.4
(3)
A 		8.2
(-1.2)
A 		18
B 7.4
(-3)
A 		15.4
(1.2)
A 		18.7
(3)
A 		12.5
(-0.3)
A 		11
C 16.8
(-0.1)
A 		11
(-3)
A 		22.9
(3)
A 		17.9
(0.5)
A 		12
avr 9
(-3) 		13.5
(-0.7) 		20.7
(3) 		12.9
(-1) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 16.3
(-2.6)
A 		23
(-1.5)
A 		14.2
(-3)
A 		16.7
(-2.6)
P 		45
(2.2)
P 		49.7
(3)
P 		36
B 17.2
(-2.5)
A 		12.1
(-3)
A 		17.8
(-2.4)
A 		11.8
(-3)
A 		58.7
(1.6)
P 		73.2
(3)
P 		61
C 9.7
(-3)
A 		21.7
(-1.6)
P 		14.1
(-2.5)
A 		15.1
(-2.4)
P 		50.5
(1.7)
P 		61.9
(3)
P 		52
avr 14.4
(-3) 		18.9
(-2.4) 		15.4
(-2.9) 		14.5
(-3) 		51.4
(1.7) 		61.6
(3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172436_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2135
Sequence Type Exemplar sequence
Representative Public ID C04F12.6 NCBI
Target Description C04F12.6 /REP_DB=WormBase Gene ID /WP=CE19679 /TR=Q9U3R8 /GB=CAB62798.1 /SUBMIT=HINXTON /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_060177(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060177 NCBI Caenorhabditis elegans C04F12.6 (C04F12.6) mRNA, complete cds. 11/11 None
SNAP00000037404 ENSEMBL cdna:SNAP chromosome:CEL140:I:9700822:9701902:-1 10/11 None
GENEFINDER00000037415 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9700822:9704831:-1 10/11 None
C04F12.6 ENSEMBL cdna:known chromosome:CEL140:I:9700822:9701902:-1 gene:C04F12.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_060144 6/11 Cross Hyb Matching Probes A 
NM_060136 6/11 Cross Hyb Matching Probes A 
NM_060137 6/11 Cross Hyb Matching Probes A 
SNAP00000041847 6/11 Cross Hyb Matching Probes None
GENEFINDER00000041863 6/11 Cross Hyb Matching Probes None
SNAP00000041482 6/11 Cross Hyb Matching Probes None
GENEFINDER00000041485 6/11 Cross Hyb Matching Probes None
SNAP00000043165 4/11 Cross Hyb Matching Probes None
C36F7.5 6/11 Cross Hyb Matching Probes A 
F42H11.1 6/11 Cross Hyb Matching Probes A 
K07A1.5 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9598676-9599833(+) 92.35 92.35
chrI:9700752-9701833(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C04F12.6
Entrez Gene 182227 Entrez gene
SwissProt Q9U3R8 EMBL-EBI
WormBase CE19679 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB62797 Hypothetical protein C04F12.7 [Caenorhabditis elegans] ref|NP_492579.1| C04F12.7 [Caenorhabditis elegans] 1.0E-99
blast G88690 protein F41H10.1 [imported] - Caenorhabditis elegans 1.0E-95
blast CAE60039 Hypothetical protein CBG03550 [Caenorhabditis briggsae] 3.0E-72
blast CAB62798 Hypothetical protein C04F12.6 [Caenorhabditis elegans] ref|NP_492578.1| C04F12.6 [Caenorhabditis elegans] 4.0E-64
blast CAB62798 Hypothetical protein C04F12.6 [Caenorhabditis elegans] ref|NP_492578.1| C04F12.6 [Caenorhabditis elegans] 5.0E-63
blast CAB03167 Hypothetical protein K07A1.5 [Caenorhabditis elegans] ref|NP_492545.1| K07A1.5 [Caenorhabditis elegans] 6.0E-52
blast CAB03167 Hypothetical protein K07A1.5 [Caenorhabditis elegans] ref|NP_492545.1| K07A1.5 [Caenorhabditis elegans] 2.0E-51
blast CAB02820 Hypothetical protein F42H11.1 [Caenorhabditis elegans] emb|CAB05721.1| Hypothetical protein F42H11.1 [Caenorhabditis elegans] ref|NP_492538.1| F42H11.1 [Caenorhabditis elegans] 1.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 2.2E-80
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 7.0E-23
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 1.8E-84
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 7.0E-23
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 1.8E-84
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 7.0E-23
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000037415 3 7-29,67-89,123-145
Sequence
Target Sequence 
>C. ELEGANS:172436_X_AT
gaacaccatcagctgctggttcagcagctccaactgctcctgcggaaggtgcagcccctg
ctgctggagcccccgctgctgtagcaccaaaacctccaatggctgcaacccacgacccga
actatcaaacattggctggattggataacaacgtatttggaaagaaggatggtgctgctc
cagctgcaggtggtggaggtccagctgctccagctgatcagaatgcaaaagcagctactc
acgatccgaattatcaaacactggcaggattgaataacaatgtttttgataagaaggatg
gtgtaggtgcccctgctgcggctcctgttgctgctggaggagacaagaaaccaattcaac
cgaatgataaaaacaagaaggctgctacgatggatcctaattatcagacactggctgcag
ttggaggagatgtattcggagctgataagaaagctggaggaggaggtggagataagaagc
caattcagccgaataacaagggtcaaaaggcagcaaccatggatccaaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACACCATCAGCTGCTGGTTCAGC 566 351 194 Antisense
AACTGCTCCTGCGGAAGGTGCAGCC 406 141 225 Antisense
AGCACCAAAACCTCCAATGGCTGCA 662 69 276 Antisense
CCACGACCCGAACTATCAAACATTG 344 273 303 Antisense
AGAAGGATGGTGCTGCTCCAGCTGC 529 75 356 Antisense
GCAGGTGGTGGAGGTCCAGCTGCTC 583 311 379 Antisense
AGCTGCTCCAGCTGATCAGAATGCA 391 81 396 Antisense
AAGCAGCTACTCACGATCCGAATTA 684 149 422 Antisense
AGAAGGATGGTGTAGGTGCCCCTGC 472 73 485 Antisense
GAAGGCTGCTACGATGGATCCTAAT 528 331 570 Antisense
AAGGCAGCAACCATGGATCCAAACT 60 161 700 Antisense
Sequence Source Affymetrix Proprietary Database