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[188406_s_at]

Description F11H8.3 /REP_DB=WormBase Gene ID /WP=CE04376 /GEN=col-8 /TR=SW:P18833 /GB=AAA81159.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 49      6grp_cgc > 99      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 10.6
(-3)
A 		25.6
(2)
A 		24.4
(1.6)
A 		28.6
(3)
A 		18
B 4.7
(-3)
A 		5.5
(-2.7)
A 		18.7
(3)
A 		5.2
(-2.8)
A 		14
C 15.5
(-1.2)
A 		34
(3)
A 		23.7
(0.7)
A 		7.4
(-3)
A 		27
avr 10.3
(-3) 		21.7
(2.7) 		22.3
(3) 		13.7
(-1.3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3152
1 2 3 4 5 6 range
A 30.5
(-2.9)
A 		9.9
(-3)
A 		4.8
(-3)
A 		24.7
(-2.9)
A 		2088
(3)
P 		401.2
(-1.9)
P 		2083
B 6.9
(-3)
A 		19.5
(-3)
A 		3.2
(-3)
A 		39.1
(-2.9)
A 		2621.5
(3)
P 		389
(-2.1)
P 		2618
C 41.9
(-2.9)
A 		3.9
(-3)
A 		27.4
(-3)
A 		7.5
(-3)
A 		3155.5
(3)
P 		247
(-2.5)
P 		3152
avr 26.4
(-3) 		11.1
(-3) 		11.8
(-3) 		23.8
(-3) 		2621.7
(3) 		345.7
(-2.2) 		2611
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 3.9
(-3)
A 		5.6
(1.1)
A 		6.4
(3)
A 		4.2
(-2.3)
A 		3
B 1.5
(-2.3)
A 		1.4
(-2.4)
A 		4.3
(3)
A 		1.1
(-3)
A 		3
C 5.1
(-0.3)
A 		9.8
(3)
A 		8.3
(1.9)
A 		1.3
(-3)
A 		9
avr 3.5
(-1.1) 		5.6
(2) 		6.3
(3) 		2.2
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1064
1 2 3 4 5 6 range
A 5.6
(-3)
A 		3.5
(-3)
A 		1
(-3)
A 		6.3
(-2.9)
A 		630.1
(3)
P 		97.7
(-2.1)
P 		629
B 2.4
(-3)
A 		6.5
(-3)
A 		0.8
(-3)
A 		10.4
(-2.9)
A 		1065.1
(3)
P 		145.1
(-2.2)
P 		1064
C 15.5
(-2.9)
A 		1.2
(-3)
A 		7
(-3)
A 		1.5
(-3)
A 		1021.1
(3)
P 		82.7
(-2.5)
P 		1020
avr 7.8
(-3) 		3.7
(-3) 		2.9
(-3) 		6.1
(-3) 		905.4
(3) 		108.5
(-2.3) 		903
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188406_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6410
Sequence Type Exemplar sequence
Representative Public ID F11H8.3 NCBI
Target Description F11H8.3 /REP_DB=WormBase Gene ID /WP=CE04376 /GEN=col-8 /TR=SW:P18833 /GB=AAA81159.1 /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_066132(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066132 NCBI Caenorhabditis elegans COLlagen family member (col-8) (col-8) mRNA, complete cds. 11/11 None
SNAP00000017877 ENSEMBL cdna:SNAP chromosome:CEL140:III:7019548:7020529:-1 11/11 None
GENEFINDER00000017880 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7019548:7020529:-1 11/11 None
F11H8.3 ENSEMBL cdna:known chromosome:CEL140:III:7019524:7020530:-1 gene:F11H8.3 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:7019544-7020490(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-8
Ensembl F11H8.3
Entrez Gene 175981 Entrez gene
SwissProt P18833 EMBL-EBI
WormBase CE04376 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
42302 structural constituent of cuticle inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81159 Collagen protein 8 [Caenorhabditis elegans] ref|NP_498533.1| COLlagen family member (col-8) [Caenorhabditis elegans] 3.0E-54
blast P18833 Cuticle collagen 8 precursor gb|AAA27993.1| collagen 2.0E-53
blast CAE70062 Hypothetical protein CBG16497 [Caenorhabditis briggsae] 8.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 2.4E-20
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.8E-11
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.2E-11
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 2.4E-20
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.8E-11
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.2E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000017877 1 5-27
GENEFINDER00000017880 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:188406_S_AT
gaccaaagtctgagggatgcccagcaggaccaccagggccacctggagagggtggacaaa
gtggagagccaggacatgatggagatgatggaaagcctggtgcaccaggagttattgttg
caattactcacgatattccaggaggatgtattaagtgcccaccaggacgtccaggaccac
gaggaccatcaggacttgtcggaccagcaggaccagctggagatcaaggaagacacggac
caccaggaccaacaggaggacaaggaggaccaggagagcagggagacgccggtcgaccag
gggcagctggacgtccagggccaccaggaccacgcggagagccaggaactgagtatcgtc
caggacaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCAAAGTCTGAGGGATGCCCAGC 129 385 269 Antisense
CCAGGGCCACCTGGAGAGGGTGGAC 290 271 301 Antisense
GAGGGTGGACAAAGTGGAGAGCCAG 695 401 316 Antisense
GATGATGGAAAGCCTGGTGCACCAG 596 409 352 Antisense
GGTGCACCAGGAGTTATTGTTGCAA 231 501 367 Antisense
GAGGATGTATTAAGTGCCCACCAGG 610 403 410 Antisense
CCATCAGGACTTGTCGGACCAGCAG 476 249 454 Antisense
GATCAAGGAAGACACGGACCACCAG 417 419 490 Antisense
CACCAGGACCAACAGGAGGACAAGG 347 199 509 Antisense
GAGCCAGGAACTGAGTATCGTCCAG 270 385 607 Antisense
GAACTGAGTATCGTCCAGGACAAGC 35 349 614 Antisense
Sequence Source Affymetrix Proprietary Database