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[183743_at]

Description T05E7.2 /REP_DB=WormBase Gene ID /WP=CE13233 /TR=O01860 /GB=AAB54214.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 62      4grp_total > 33      6grp_cgc > 74      6grp_cgc_sub > 02_03_04_05      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 103
1 2 3 4 range
A 2.8
(-3)
A 		46.3
(1.7)
A 		6
(-2.7)
A 		58.6
(3)
A 		56
B 3.4
(-2.8)
A 		1.7
(-3)
A 		63.4
(3)
A 		10.7
(-2.1)
A 		62
C 22.1
(-3)
A 		104.5
(3)
A 		47.4
(-1.2)
A 		62.5
(-0.1)
A 		82
avr 9.4
(-3) 		50.8
(3) 		38.9
(1.3) 		43.9
(2) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 91
1 2 3 4 5 6 range
A 8
(-3)
A 		28.6
(-1.5)
A 		92.7
(3)
P 		37.2
(-0.9)
A 		34.9
(-1.1)
A 		10.7
(-2.8)
A 		85
B 2.7
(-3)
A 		19.5
(1.5)
A 		22.2
(2.3)
A 		24.9
(3)
A 		21.9
(2.2)
A 		2.9
(-2.9)
A 		22
C 3.4
(-2.8)
A 		52.1
(3)
A 		32.9
(0.7)
A 		5.4
(-2.5)
A 		34.7
(0.9)
A 		1.6
(-3)
A 		51
avr 4.7
(-3) 		33.4
(0.9) 		49.3
(3) 		22.5
(-0.6) 		30.5
(0.5) 		5.1
(-2.9) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 1
(-3)
A 		10.1
(3)
A 		1.6
(-2.6)
A 		8.6
(2)
A 		9
B 1.1
(-2.7)
A 		0.4
(-3)
A 		14.7
(3)
A 		2.3
(-2.2)
A 		14
C 7.3
(-3)
A 		30.1
(3)
A 		16.5
(-0.6)
A 		10.5
(-2.2)
A 		23
avr 3.1
(-3) 		13.5
(3) 		10.9
(1.5) 		7.1
(-0.7) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 1.5
(-3)
A 		10.2
(-0.2)
A 		20.2
(3)
P 		9.4
(-0.5)
A 		10.5
(-0.1)
A 		2.6
(-2.6)
A 		19
B 0.9
(-3)
A 		6.5
(1.2)
A 		5.4
(0.4)
A 		6.6
(1.3)
A 		8.9
(3)
A 		1.1
(-2.9)
A 		8
C 1.3
(-2.7)
A 		15.9
(3)
A 		8.4
(0.1)
A 		1.1
(-2.8)
A 		11.2
(1.2)
A 		0.5
(-3)
A 		15
avr 1.2
(-3) 		10.9
(2.8) 		11.3
(3) 		5.7
(-0.3) 		10.2
(2.3) 		1.4
(-2.9) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183743_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1279
Sequence Type Exemplar sequence
Representative Public ID T05E7.2 NCBI
Target Description T05E7.2 /REP_DB=WormBase Gene ID /WP=CE13233 /TR=O01860 /GB=AAB54214.1 /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_059385(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059385 NCBI Caenorhabditis elegans COLlagen family member (col-55) (col-55) mRNA, complete cds. 11/11 None
GENEFINDER00000044434 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6207195:6208328:1 11/11 None
SNAP00000044426 ENSEMBL cdna:SNAP chromosome:CEL140:I:6207808:6208328:1 9/11 None
T05E7.2 ENSEMBL cdna:known chromosome:CEL140:I:6207276:6208328:1 gene:T05E7.2 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:6207204-6208257(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-55
Ensembl T05E7.2
Entrez Gene 188127 Entrez gene
SwissProt O01860 EMBL-EBI
WormBase CE13233 Wormbase
Functional Annotations
Gene Ontology
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 AAB54214 Collagen protein 55 [Caenorhabditis elegans] ref|NP_491786.1| COLlagen family member (col-55) [Caenorhabditis elegans] 4.0E-52
blast AAB54214 Collagen protein 55 [Caenorhabditis elegans] ref|NP_491786.1| COLlagen family member (col-55) [Caenorhabditis elegans] 5.0E-52
blast CAE72218 Hypothetical protein CBG19329 [Caenorhabditis briggsae] 3.0E-29
blast CAE72217 Hypothetical protein CBG19328 [Caenorhabditis briggsae] 4.0E-29
blast CAE72217 Hypothetical protein CBG19328 [Caenorhabditis briggsae] 5.0E-29
blast AAB54214 Collagen protein 55 [Caenorhabditis elegans] ref|NP_491786.1| COLlagen family member (col-55) [Caenorhabditis elegans] 7.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 2.8E-24
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 2.8E-24
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491786.1 1 21-43
T05E7.2 1 21-43
GENEFINDER00000044434 1 50-72
Sequence
Target Sequence 
>C. ELEGANS:183743_AT
ttattgcatgtcttttcgctgttggatatagtttcaatgatatcaattccttctacgatg
aggttatggatactatgactgagttcaaattcaacgaacaacaggcatggaactcaatgg
tgaaaccaatcgatgtctttggaagaattaaacgtagagccaacacgcgtcaagcacaat
gtaactgtgaatcccaatctcaaggatgcccagctggaccaccaggaccaccaggtcagc
ctggagcacaaggagagcaaggacatgttgaagtttctggacaaccaggagcaccaagac
cacaaggaccagccggaggaccaggacaaccagtacaatctggtggatcaggagcctcag
gagcaccaggacagccagggcaagccggtgcacaaggaactccaggagcgccaggaaact
ctggatctccaggaggagatgctgctcattgtccatgcccatctcgttccgttgtagttc
gtaaacatcgcaaggtcttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATTGCATGTCTTTTCGCTGTTGG 453 679 110 Antisense
ATGATATCAATTCCTTCTACGATGA 297 47 146 Antisense
AACGAACAACAGGCATGGAACTCAA 324 145 202 Antisense
AAACGTAGAGCCAACACGCGTCAAG 254 127 259 Antisense
CACGCGTCAAGCACAATGTAACTGT 460 199 273 Antisense
TGGTGGATCAGGAGCCTCAGGAGCA 551 553 450 Antisense
AGGGCAAGCCGGTGCACAAGGAACT 68 59 486 Antisense
GAGCGCCAGGAAACTCTGGATCTCC 1 387 515 Antisense
GGAGGAGATGCTGCTCATTGTCCAT 25 517 541 Antisense
CATCTCGTTCCGTTGTAGTTCGTAA 677 211 569 Antisense
AGTTCGTAAACATCGCAAGGTCTTC 449 63 585 Antisense
Sequence Source Affymetrix Proprietary Database