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[181870_at]

Description F56B3.1 /REP_DB=WormBase Gene ID /WP=CE17882 /TR=O45114 /GB=AAK29827.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 21      6grp_highest_nonorm > 06      6grp_total > 32      4grp_total > 61      6grp_cgc > 70      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6064
1 2 3 4 range
A 5978.4
(3)
P 		5795.9
(2.8)
P 		5218.8
(2.2)
P 		130.7
(-3)
A 		5848
B 5907.3
(3)
P 		4900.8
(2)
P 		4983
(2)
P 		104.1
(-3)
A 		5803
C 6167.6
(3)
P 		5046.5
(1.9)
P 		4715.3
(1.5)
P 		182.5
(-3)
A 		5985
avr 6017.8
(3) 		5247.7
(2.2) 		4972.4
(1.9) 		139.1
(-3) 		5879

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13744
1 2 3 4 5 6 range
A 10653.4
(1.2)
P 		10635.7
(1.2)
P 		13991.9
(3)
P 		10648.3
(1.2)
P 		7259.6
(-0.6)
P 		2687.4
(-3)
P 		11305
B 11213.4
(1.7)
P 		8715.5
(0.5)
P 		13821.5
(3)
P 		10044.4
(1.2)
P 		7101
(-0.3)
P 		1483.3
(-3)
P 		12338
C 11732.9
(1.7)
P 		9102.7
(0.5)
P 		14780.8
(3)
P 		8971.5
(0.5)
P 		9684
(0.8)
P 		1036.5
(-3)
P 		13744
avr 11199.9
(1.6) 		9484.6
(0.7) 		14198.1
(3) 		9888.1
(0.9) 		8014.9
(0) 		1735.7
(-3) 		12462
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2158
1 2 3 4 range
A 2176.7
(3)
P 		1258.1
(0.4)
P 		1364.3
(0.7)
P 		19.1
(-3)
A 		2158
B 1883.8
(3)
P 		1210.4
(0.8)
P 		1154.7
(0.7)
P 		22.2
(-3)
A 		1862
C 2041.6
(3)
P 		1450.9
(1.2)
P 		1643.4
(1.8)
P 		30.8
(-3)
A 		2011
avr 2034
(3) 		1306.5
(0.8) 		1387.5
(1.1) 		24
(-3) 		2010

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4002
1 2 3 4 5 6 range
A 1963.9
(-0.5)
P 		3782.6
(3)
P 		3047.1
(1.6)
P 		2700.7
(0.9)
P 		2190.6
(-0.1)
P 		654.3
(-3)
P 		3128
B 3901.7
(3)
P 		2901
(1.2)
P 		3356.3
(2)
P 		2660.4
(0.8)
P 		2885
(1.2)
P 		553.1
(-3)
P 		3349
C 4348.9
(3)
P 		2777.5
(0.6)
P 		3762
(2.1)
P 		1804.2
(-0.8)
P 		3133.6
(1.2)
P 		347
(-3)
P 		4002
avr 3404.8
(3) 		3153.7
(2.5) 		3388.5
(3) 		2388.4
(0.9) 		2736.4
(1.6) 		518.1
(-3) 		2887
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181870_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10506
Sequence Type Exemplar sequence
Representative Public ID F56B3.1 NCBI
Target Description F56B3.1 /REP_DB=WormBase Gene ID /WP=CE17882 /TR=O45114 /GB=AAK29827.1 /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_067581(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067581 NCBI Caenorhabditis elegans COLlagen family member (col-103) (col-103) mRNA, complete cds. 11/11 None
SNAP00000041561 ENSEMBL cdna:SNAP chromosome:CEL140:IV:762453:763664:-1 11/11 None
GENEFINDER00000041576 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:762453:763664:-1 11/11 None
F56B3.1 ENSEMBL cdna:known chromosome:CEL140:IV:762420:763773:-1 gene:F56B3.1 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
chrIV:762458-763670(-) 81.09 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-103
Ensembl F56B3.1
Entrez Gene 176901 Entrez gene
SwissProt O45114 EMBL-EBI
WormBase CE17882 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 AAK29827 Collagen protein 103 [Caenorhabditis elegans] ref|NP_499982.1| COLlagen family member (col-103) [Caenorhabditis elegans] 1.0E-37
blast CAE65655 Hypothetical protein CBG10720 [Caenorhabditis briggsae] 1.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 1.2E-23
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.9E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 9.2E-8
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.4E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499982.1 1 7-29
F56B3.1 1 7-29
SNAP00000041561 1 7-29
GENEFINDER00000041576 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:181870_AT
ggagcttccgagggaagcgccggaggatgcaagacctgcccagccggaccaccaggacca
ccaggaccagccggacaagcaggacgcccaggaaacgacggacagccaggagccccatca
ttcggaggaggtgtcggagcaccaggagccccaggaccagccggagacgccggatcacca
ggacaaccaggagcaccaggacagccaggacgtccaggaaagaacgcacaaggaggatct
tcccgaccaggaccaccaggaccagccggaccaccaggaccaccaggaaacaatggagct
ccaggaggtggatacggagttggaccaccaggaccaccaggaccatccgggcgcccagga
gccccaggacagccaggaccagacggacagccaggagctccaggaaacgatggaacccca
ggaaccgacgctgcctactgcccatgcccagggcgtggaggaggcggaggaggatatgga
gccggtgctcatcacggaggaccacaaggattctcccgcagaaaggttgctcgcaaggtt
cttgccaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCTTCCGAGGGAAGCGCCGGAG 614 519 529 Antisense
AAGCGCCGGAGGATGCAAGACCTGC 656 149 543 Antisense
AGCCCCATCATTCGGAGGAGGTGTC 352 79 639 Antisense
TCATTCGGAGGAGGTGTCGGAGCAC 390 619 646 Antisense
GGACGTCCAGGAAAGAACGCACAAG 180 525 736 Antisense
AACGCACAAGGAGGATCTTCCCGAC 603 145 751 Antisense
TGCCCATGCCCAGGGCGTGGAGGAG 170 585 967 Antisense
GTGCTCATCACGGAGGACCACAAGG 284 479 1013 Antisense
CGGAGGACCACAAGGATTCTCCCGC 183 243 1023 Antisense
TTCTCCCGCAGAAAGGTTGCTCGCA 321 687 1039 Antisense
GGTTGCTCGCAAGGTTCTTGCCAAG 36 507 1053 Antisense
Sequence Source Affymetrix Proprietary Database