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[189476_s_at] cuticle collagen

Description D2024.8 /REP_DB=WormBase Gene ID /WP=CE27897 /TR=Q18975 /GB=AAA82291.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cuticle collagen
Cluster 6grp_total > 83      4grp_total > 43      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 47
1 2 3 4 range
A 2.6
(-3)
A 		8.4
(-1.1)
A 		5.5
(-2.1)
A 		21.4
(3)
A 		19
B 26.6
(3)
A 		19.7
(1)
A 		6.4
(-3)
A 		6.9
(-2.9)
A 		20
C 23
(-3)
A 		49.6
(3)
A 		29.7
(-1.5)
A 		23.7
(-2.8)
A 		27
avr 17.4
(-1.3) 		25.9
(3) 		13.9
(-3) 		17.3
(-1.3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5088
1 2 3 4 5 6 range
A 24.6
(-3)
A 		4.6
(-3)
A 		192.6
(-2.8)
A 		5034.2
(3)
P 		4250.6
(2.1)
P 		844.3
(-2)
A 		5030
B 6.5
(-3)
A 		7.4
(-3)
A 		235.3
(-2.7)
A 		4767.6
(3)
P 		4651.1
(2.9)
P 		772.3
(-2)
P 		4761
C 24.1
(-3)
A 		50.3
(-3)
A 		259.9
(-2.7)
A 		3724.7
(1.4)
P 		5092.1
(3)
P 		526
(-2.4)
P 		5068
avr 18.4
(-3) 		20.8
(-3) 		229.3
(-2.7) 		4508.8
(2.8) 		4664.6
(3) 		714.2
(-2.1) 		4646
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 0.9
(-3)
A 		1.8
(-0.5)
A 		1.4
(-1.6)
A 		3.1
(3)
A 		2
B 8.5
(3)
A 		4.9
(-0.1)
A 		1.5
(-3)
A 		1.5
(-3)
A 		7
C 7.6
(-0.9)
A 		14.3
(3)
A 		10.3
(0.7)
A 		4
(-3)
A 		10
avr 5.7
(1.1) 		7
(3) 		4.4
(-0.8) 		2.9
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1888
1 2 3 4 5 6 range
A 4.5
(-3)
A 		1.6
(-3)
A 		41.9
(-2.8)
A 		1276.8
(3)
P 		1282.6
(3)
P 		205.6
(-2)
A 		1281
B 2.3
(-3)
A 		2.4
(-3)
A 		57.1
(-2.8)
A 		1262.8
(1)
P 		1889.7
(3)
P 		288
(-2.1)
P 		1887
C 8.9
(-3)
A 		15.4
(-3)
A 		66.2
(-2.8)
A 		749
(-0.3)
P 		1647.7
(3)
P 		176.1
(-2.4)
P 		1639
avr 5.2
(-3) 		6.5
(-3) 		55.1
(-2.8) 		1096.2
(1.1) 		1606.7
(3) 		223.2
(-2.2) 		1602
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189476_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10078
Sequence Type Exemplar sequence
Representative Public ID D2024.8 NCBI
Target Description D2024.8 /REP_DB=WormBase Gene ID /WP=CE27897 /TR=Q18975 /GB=AAA82291.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cuticle collagen
Cluster Evidence This cluster is supported by a 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_068749(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068749 NCBI Caenorhabditis elegans COLlagen family member (col-114) (col-114) mRNA, complete cds. 11/11 None
SNAP00000033329 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7245489:7246624:-1 11/11 None
GENEFINDER00000033337 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7245489:7246624:-1 11/11 None
D2024.8 ENSEMBL cdna:known chromosome:CEL140:IV:7245489:7246624:-1 gene:D2024.8 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:7245494-7246630(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticle collagen
Gene Symbol col-114
Ensembl D2024.8
Entrez Gene 177500 Entrez gene
SwissProt Q18975 EMBL-EBI
WormBase CE27897 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 NP_501150 COLlagen family member (col-114) [Caenorhabditis elegans] gb|AAA82291.2| Collagen protein 114 [Caenorhabditis elegans] 3.0E-71
blast CAE61844 Hypothetical protein CBG05818 [Caenorhabditis briggsae] 1.0E-61
blast CAE62024 Hypothetical protein CBG06035 [Caenorhabditis briggsae] 1.0E-14
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.1E-10
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.4E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501150.1 1 20-42
D2024.8 1 20-42
SNAP00000033329 1 20-42
GENEFINDER00000033337 1 20-42
Sequence
Target Sequence 
>C. ELEGANS:189476_S_AT
gttgtccaggaggacctggtccaaatggaaaaccaggaaagccaggacgtccaggaaagc
cgggagcaccaggactgccaggtgttccaggaaagacaacaattcaagcaccatgtgaag
ctgcatcaccaccgccttgcagagtctgtccagttggaatgcctggagagcaaggagtaa
ctggagcaccgggagataaaggaccggctggtcagccaggccgtaacggtccagatggac
caaatggagaaccaggaccaaagggaccaccaggacagccaggagccgatggacagccag
gaatgccaggagaaccaggaaaagacgcaccacaagaaggatccccagttccaggagatc
caggaccgccaggagattctggaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGTCCAGGAGGACCTGGTCCAAA 167 435 389 Antisense
GAGCACCAGGACTGCCAGGTGTTCC 654 389 452 Antisense
ACCATGTGAAGCTGCATCACCACCG 663 85 498 Antisense
CGCCTTGCAGAGTCTGTCCAGTTGG 660 255 521 Antisense
GCAAGGAGTAACTGGAGCACCGGGA 399 285 558 Antisense
GATAAAGGACCGGCTGGTCAGCCAG 168 411 583 Antisense
TCAGCCAGGCCGTAACGGTCCAGAT 285 623 600 Antisense
GAACCAGGAAAAGACGCACCACAAG 478 343 700 Antisense
GCACCACAAGAAGGATCCCCAGTTC 311 315 715 Antisense
ATCCCCAGTTCCAGGAGATCCAGGA 657 37 729 Antisense
CAGGACCGCCAGGAGATTCTGGAAT 408 209 749 Antisense
Sequence Source Affymetrix Proprietary Database