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[178878_at]

Description C38D9.5 /REP_DB=WormBase Gene ID /WP=CE19731 /TR=Q9XTC7 /GB=CAB07494.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 47      4grp_total > 13      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 72.8
(1)
A 		6.4
(-3)
A 		6.5
(-3)
A 		106.3
(3)
M 		100
B 23.6
(-0.5)
A 		31.8
(0.6)
A 		6
(-3)
A 		48.5
(3)
A 		43
C 69.9
(0.2)
M 		28.6
(-3)
A 		31.2
(-2.8)
A 		105.7
(3)
P 		77
avr 55.4
(0.4) 		22.3
(-2.4) 		14.6
(-3) 		86.8
(3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 55.9
(2.3)
A 		19.7
(-2.7)
A 		60.6
(3)
A 		20.2
(-2.7)
A 		17.8
(-3)
A 		36.7
(-0.4)
A 		43
B 48.5
(0.5)
A 		48
(0.5)
A 		15.6
(-3)
A 		71.9
(3)
P 		19.3
(-2.6)
A 		46.9
(0.3)
P 		56
C 34.5
(0.5)
A 		52.3
(2.5)
A 		9.3
(-2.3)
A 		2.5
(-3)
A 		46.6
(1.9)
A 		56.9
(3)
A 		54
avr 46.3
(2.8) 		40
(0.8) 		28.5
(-2.8) 		31.5
(-1.9) 		27.9
(-3) 		46.8
(3) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 26.5
(3)
A 		1.4
(-3)
A 		1.7
(-2.9)
A 		15.6
(0.4)
M 		25
B 7.5
(1.1)
A 		7.9
(1.4)
A 		1.4
(-3)
A 		10.3
(3)
A 		9
C 23.1
(3)
M 		8.2
(-3)
A 		10.9
(-1.9)
A 		17.8
(0.9)
P 		15
avr 19
(3) 		5.8
(-2.5) 		4.7
(-3) 		14.6
(1.2) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 10.3
(0.9)
A 		7
(-1.6)
A 		13.2
(3)
A 		5.1
(-3)
A 		5.4
(-2.8)
A 		8.9
(-0.2)
A 		8
B 16.9
(2.1)
A 		16
(1.8)
A 		3.8
(-3)
A 		19.1
(3)
P 		7.8
(-1.4)
A 		17.5
(2.4)
P 		15
C 12.8
(1)
A 		15.9
(2)
A 		2.4
(-2.4)
A 		0.5
(-3)
A 		15.1
(1.7)
A 		19
(3)
A 		19
avr 13.3
(1.7) 		13
(1.5) 		6.5
(-3) 		8.2
(-1.8) 		9.4
(-1) 		15.1
(3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178878_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14431
Sequence Type Exemplar sequence
Representative Public ID C38D9.5 NCBI
Target Description C38D9.5 /REP_DB=WormBase Gene ID /WP=CE19731 /TR=Q9XTC7 /GB=CAB07494.1 /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_075052(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075052 NCBI Caenorhabditis elegans C38D9.5 (C38D9.5) mRNA, complete cds. 11/11 None
SNAP00000042763 ENSEMBL cdna:SNAP chromosome:CEL140:V:17593796:17594551:1 11/11 None
GENEFINDER00000042782 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17591946:17596308:1 9/11 None
C38D9.5 ENSEMBL cdna:known chromosome:CEL140:V:17589428:17594551:1 gene:C38D9.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000022034 6/11 Cross Hyb Matching Probes None
GENEFINDER00000022045 4/11 Cross Hyb Matching Probes None
F47H4.12 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:17589427-17594551(+) 100.0 100.0
chrV:17364139-17371880(+) 91.43 91.43
Public Domain and Genome References
Gene Title
Ensembl C38D9.5
Entrez Gene 183316 Entrez gene
SwissProt Q9XTC7 EMBL-EBI
WormBase CE19731 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07494 Hypothetical protein C38D9.5 [Caenorhabditis elegans] emb|CAB03951.1| Hypothetical protein C38D9.5 [Caenorhabditis elegans] ref|NP_507453.1| C38D9.5 [Caenorhabditis elegans] 0.0
blast CAB60453 Hypothetical protein Y67A10A.3 [Caenorhabditis elegans] ref|NP_502740.2| Y67A10A.3 [Caenorhabditis elegans] 1.0E-127
blast CAB07494 Hypothetical protein C38D9.5 [Caenorhabditis elegans] emb|CAB03951.1| Hypothetical protein C38D9.5 [Caenorhabditis elegans] ref|NP_507453.1| C38D9.5 [Caenorhabditis elegans] 1.0E-123
blast CAB07493 Hypothetical protein Y6G8.1 [Caenorhabditis elegans] ref|NP_507454.2| Serpentine Receptor, class Z family member (srz-45) [Caenorhabditis elegans] 1.0E-118
blast CAE61517 Hypothetical protein CBG05417 [Caenorhabditis briggsae] 9.0E-92
blast CAE61517 Hypothetical protein CBG05417 [Caenorhabditis briggsae] 2.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR003125 EMBL-EBI Protein of unknown function WSN 6.1E-17
Pfam IPR003845 EMBL-EBI Protein of unknown function DUF216 2.5E-32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507453.1 1 775-797
C38D9.5 1 775-797
SNAP00000042763 1 10-32
GENEFINDER00000042782 6 127-149,542-564,585-607,627-649,670-692,712-734
Sequence
Target Sequence 
>C. ELEGANS:178878_AT
atgggacatcgttggctcaaggcatgtatcgataagtcttctactatcactgacaatatg
aagttccgtgtcaccaagatgctcttccaaggcaaagagtataaagctctgattgagatc
aaaaatttcatcaatcgaatgaatgttccgtaccttatgaattcgggtgtttcgtataac
gagtttgtcatcaagccggaatgggccacgctgcgcattgtttgttctcaacttggagtt
tacgatggaacaggagactttccggcaacaaatccaaaggaaggaccgtcatatcatcgt
gaggaaaaaccgaaaaacattttcttgtaccgtccgcggagttgggatcaggtccgattg
aacttcaagcaagtgtggctcgagaatccgaaatttttcttcatgagcacggacaagttt
acccatttcctgctcggtttcaagatcactacggagaatgttttgaaatatgaaaagtat
ggtaaaaacagatctgcactcaaaaacaagaagacgcttacgaaggaagatgagagtact
tcaagtcaacccgagttgagcaacactgctggctctcaagttaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGGACATCGTTGGCTCAAGGCAT 222 51 3025 Antisense
AGTTCCGTGTCACCAAGATGCTCTT 69 65 3086 Antisense
ATCAAGCCGGAATGGGCCACGCTGC 389 27 3214 Antisense
TGCGCATTGTTTGTTCTCAACTTGG 479 583 3236 Antisense
GAACAGGAGACTTTCCGGCAACAAA 688 351 3272 Antisense
GAAGGACCGTCATATCATCGTGAGG 269 333 3304 Antisense
TACCGTCCGCGGAGTTGGGATCAGG 351 649 3352 Antisense
TGAGCACGGACAAGTTTACCCATTT 472 569 3428 Antisense
ATTTCCTGCTCGGTTTCAAGATCAC 347 17 3449 Antisense
GAGTACTTCAAGTCAACCCGAGTTG 415 389 3558 Antisense
CAACACTGCTGGCTCTCAAGTTAAT 613 189 3585 Antisense
Sequence Source Affymetrix Proprietary Database