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[182414_at]

Description D1007.2 /REP_DB=WormBase Gene ID /WP=CE09037 /TR=O01873 /GB=AAK18909.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 56      6grp_cgc > 99      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 6.8
(-1.8)
A 		12.7
(2.4)
A 		13.6
(3)
A 		5.1
(-3)
A 		9
B 12.6
(2.4)
A 		8.2
(-3)
A 		8.8
(-2.3)
A 		13.1
(3)
A 		5
C 8.9
(-2.3)
A 		14.8
(0.2)
A 		21.3
(3)
A 		7.3
(-3)
A 		14
avr 9.4
(-2.1) 		11.9
(0.3) 		14.6
(3) 		8.5
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 13.8
(-0.8)
A 		6.9
(-3)
A 		25.8
(3)
A 		11.8
(-1.4)
A 		18.4
(0.7)
A 		25.2
(2.8)
A 		19
B 20.3
(2.6)
A 		11.5
(-0.5)
A 		6.2
(-2.4)
A 		11.8
(-0.4)
A 		21.5
(3)
A 		4.5
(-3)
A 		17
C 45.3
(-0.6)
A 		7.4
(-2.8)
A 		12.5
(-2.5)
A 		12
(-2.6)
A 		106.3
(3)
A 		4.6
(-3)
A 		102
avr 26.5
(-0.3) 		8.6
(-3) 		14.8
(-2.1) 		11.9
(-2.5) 		48.7
(3) 		11.4
(-2.6) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 2.5
(0.8)
A 		2.7
(1.2)
A 		3.5
(3)
A 		0.8
(-3)
A 		3
B 4
(3)
A 		2
(-3)
A 		2
(-3)
A 		2.8
(-0.6)
A 		2
C 2.9
(-1.4)
A 		4.2
(-0.1)
A 		7.4
(3)
A 		1.2
(-3)
A 		6
avr 3.1
(0.3) 		3
(0.1) 		4.3
(3) 		1.6
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 2.5
(-2.8)
A 		2.4
(-3)
A 		5.6
(2.2)
A 		3
(-2)
A 		5.5
(2)
A 		6.1
(3)
A 		4
B 7
(1.6)
A 		3.8
(-1.1)
A 		1.5
(-3)
A 		3.1
(-1.7)
A 		8.7
(3)
A 		1.7
(-2.8)
A 		7
C 16.8
(-0.2)
A 		2.3
(-2.9)
A 		3.2
(-2.7)
A 		2.4
(-2.8)
A 		34.4
(3)
A 		1.5
(-3)
A 		33
avr 8.8
(-0.3) 		2.8
(-3) 		3.4
(-2.7) 		2.8
(-3) 		16.2
(3) 		3.1
(-2.9) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182414_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1253
Sequence Type Exemplar sequence
Representative Public ID D1007.2 NCBI
Target Description D1007.2 /REP_DB=WormBase Gene ID /WP=CE09037 /TR=O01873 /GB=AAK18909.1 /SUBMIT=ST.LOUIS /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_058993(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058993 NCBI Caenorhabditis elegans COLlagen family member (col-52) (col-52) mRNA, complete cds. 11/11 None
SNAP00000011277 ENSEMBL cdna:SNAP chromosome:CEL140:I:4571215:4574976:-1 11/11 None
GENEFINDER00000011299 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4571215:4572889:-1 11/11 None
D1007.2 ENSEMBL cdna:known chromosome:CEL140:I:4571215:4572889:-1 gene:D1007.2 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
chrI:4571214-4572889(-) 96.51 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-52
Ensembl D1007.2
Entrez Gene 183885 Entrez gene
SwissProt O01873 EMBL-EBI
WormBase CE09037 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
6817 phosphate transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK18909 Collagen protein 52 [Caenorhabditis elegans] ref|NP_491394.1| COLlagen family member (col-52) [Caenorhabditis elegans] 1.0E-131
blast AAK18909 Collagen protein 52 [Caenorhabditis elegans] ref|NP_491394.1| COLlagen family member (col-52) [Caenorhabditis elegans] 1.0E-126
blast AAK18909 Collagen protein 52 [Caenorhabditis elegans] ref|NP_491394.1| COLlagen family member (col-52) [Caenorhabditis elegans] 1.0E-117
blast CAE74524 Hypothetical protein CBG22278 [Caenorhabditis briggsae] 2.0E-25
blast CAE74524 Hypothetical protein CBG22278 [Caenorhabditis briggsae] 8.0E-25
blast CAE74524 Hypothetical protein CBG22278 [Caenorhabditis briggsae] 1.0E-24
blast CAE75204 Hypothetical protein CBG23151 [Caenorhabditis briggsae] 4.0E-12
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.2E-5
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.2E-5
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.2E-5
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.7E-4
Sequence
Target Sequence 
>C. ELEGANS:182414_AT
aaaaattgtccagaaggcccaccaggcatccctggaaaaccaggaaaagacggaatacca
ggtgaacctggagttaacgggactaacgggttctctggaatcagtgttcttgttgcaaat
ggatgtattcaatgccatatcgggaaaccggggccacgtggcaaaagggggaaacgagga
aagaagggaaaagacgggaaaaatggaatatcggtgaaagcggtgattggattacccggg
ccaactggggaggttggatggcaaggttacccgggatttcctggaccagttggaccagtt
gggccacctggaaataataaaaatcgatatattggtctaccggggccacgtggaagagct
ggacgaaaaggatatcaaggagcacagggaaatgcgggatttatttacaacaccgggatc
attggtcctagtggacgatctggcaagaatggattgaatggaaggactggggcaactggg
catccaggacacacgggccgtcccggacgagatggaaactactgcgagtgtccgccaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAAATTGTCCAGAAGGCCCACCAG 33 3 379 Antisense
GGGACTAACGGGTTCTCTGGAATCA 80 493 457 Antisense
CATATCGGGAAACCGGGGCCACGTG 373 207 514 Antisense
CAGTTGGACCAGTTGGGCCACCTGG 550 203 665 Antisense
TCTACCGGGGCCACGTGGAAGAGCT 449 227 714 Antisense
AACACCGGGATCATTGGTCCTAGTG 58 137 787 Antisense
GTCCTAGTGGACGATCTGGCAAGAA 321 477 803 Antisense
GAAGGACTGGGGCAACTGGGCATCC 661 331 839 Antisense
AACTGGGCATCCAGGACACACGGGC 531 139 852 Antisense
GCCGTCCCGGACGAGATGGAAACTA 20 283 875 Antisense
GAAACTACTGCGAGTGTCCGCCAAT 573 355 893 Antisense
Sequence Source Affymetrix Proprietary Database