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[183685_at]

Description F17E9.1 /REP_DB=WormBase Gene ID /WP=CE07069 /TR=O61525 /GB=AAC05105.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 40      6grp_cgc > 87      6grp_cgc_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 8.6
(-3)
A 		13.1
(-2.5)
A 		59
(3)
A 		57.2
(2.8)
A 		50
B 23.4
(-3)
A 		61.6
(3)
A 		47.3
(0.8)
A 		55.6
(2.1)
A 		38
C 8.8
(-3)
A 		89.6
(3)
A 		80.3
(2.3)
A 		37
(-0.9)
A 		81
avr 13.6
(-3) 		54.8
(2.1) 		62.2
(3) 		49.9
(1.5) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 264
1 2 3 4 5 6 range
A 17.7
(-3)
A 		61.7
(-1.9)
A 		85.1
(-1.4)
A 		166.6
(0.6)
P 		267.3
(3)
A 		99.2
(-1)
P 		250
B 3.6
(-3)
A 		12.3
(-2.8)
A 		58.1
(-1.6)
A 		172
(1.4)
P 		233.7
(3)
P 		69.8
(-1.3)
P 		230
C 15.5
(-3)
A 		69.4
(-1.6)
A 		59.4
(-1.8)
A 		146.1
(0.4)
P 		243.1
(3)
P 		80.3
(-1.3)
A 		228
avr 12.3
(-3) 		47.8
(-2.1) 		67.5
(-1.6) 		161.6
(0.8) 		248
(3) 		83.1
(-1.2) 		236
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 3.1
(-2.9)
A 		2.8
(-3)
A 		15.4
(3)
A 		8.4
(-0.3)
A 		13
B 7.4
(-3)
A 		15.2
(3)
A 		11
(-0.2)
A 		11.8
(0.4)
A 		8
C 2.9
(-3)
A 		25.8
(2.5)
A 		28
(3)
A 		6.2
(-2.2)
A 		25
avr 4.5
(-3) 		14.6
(1.5) 		18.1
(3) 		8.8
(-1.1) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 3.3
(-3)
A 		22
(-1.6)
A 		18.5
(-1.8)
A 		42.2
(0)
P 		80.7
(3)
A 		24.2
(-1.4)
P 		77
B 1.3
(-3)
A 		4.1
(-2.8)
A 		14.1
(-2.2)
A 		45.6
(-0.2)
P 		94.9
(3)
P 		26
(-1.4)
P 		94
C 5.7
(-3)
A 		21.2
(-1.7)
A 		15.1
(-2.2)
A 		29.4
(-1.1)
P 		78.7
(3)
P 		26.9
(-1.3)
A 		73
avr 3.4
(-3) 		15.8
(-2.1) 		15.9
(-2.1) 		39.1
(-0.4) 		84.8
(3) 		25.7
(-1.4) 		81
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183685_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9703
Sequence Type Exemplar sequence
Representative Public ID F17E9.1 NCBI
Target Description F17E9.1 /REP_DB=WormBase Gene ID /WP=CE07069 /TR=O61525 /GB=AAC05105.1 /SUBMIT=ST.LOUIS /CHR=4 /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_069015(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069015 NCBI Caenorhabditis elegans COLlagen family member (col-116) (col-116) mRNA, complete cds. 11/11 None
F17E9.1 ENSEMBL cdna:known chromosome:CEL140:IV:8356758:8357836:1 gene:F17E9.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000025665 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8356763-8357842(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-116
Ensembl F17E9.1
Entrez Gene 184617 Entrez gene
SwissProt O61525 EMBL-EBI
WormBase CE07069 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 AAC05105 Collagen protein 116 [Caenorhabditis elegans] ref|NP_501416.1| COLlagen family member (col-116) [Caenorhabditis elegans] 4.0E-91
blast CAE73738 Hypothetical protein CBG21264 [Caenorhabditis briggsae] 6.0E-50
blast CAE73736 Hypothetical protein CBG21262 [Caenorhabditis briggsae] 1.0E-12
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 1.9E-19
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.7E-6
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 7.6E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501416.1 1 7-29
F17E9.1 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:183685_AT
gtatattcggacctcctggtgaagatggcacaccgggtgaacctggattagatggagatc
caggaaccacagcaacacgccagatggcaatggattacaccggtggcagtgaatgtgtga
aatgtcctgctggtcctcctggagctcctggaccaaatggaccgcctggctatgaaggac
aaatgggagttcccggattacctggtgatggtccaactcctggatccccagggcctccag
gtccacctggaccacccggatatcctggacgtcaaggatgccaaggaaaagatggtcctt
ctggagatcctggattacgattcatcaaaactcctggaccagttggagctgcaggaccac
caggaccgccaggtccacctggatcacctggggaaaacactgaaggtgctccaggacttg
atggacctctaggtccccctggaaaacctggaacacctggaaccgatggtgctcctgggg
tatttggagatgacggagtacctggacaagatgcacaatattgtcaatgtccaccaagaa
ctccaatcggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATATTCGGACCTCCTGGTGAAGA 562 451 350 Antisense
GGCACACCGGGTGAACCTGGATTAG 562 523 376 Antisense
GGAGATCCAGGAACCACAGCAACAC 92 519 403 Antisense
GATGGCAATGGATTACACCGGTGGC 266 407 432 Antisense
TGTGTGAAATGTCCTGCTGGTCCTC 472 553 463 Antisense
GGAGCTCCTGGACCAAATGGACCGC 614 521 490 Antisense
TTACCTGGTGATGGTCCAACTCCTG 618 677 547 Antisense
CACCCGGATATCCTGGACGTCAAGG 100 201 602 Antisense
GATGGTCCTTCTGGAGATCCTGGAT 577 407 640 Antisense
GTCCACCTGGATCACCTGGGGAAAA 30 477 722 Antisense
TGTCCACCAAGAACTCCAATCGGCA 585 557 877 Antisense
Sequence Source Affymetrix Proprietary Database