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[188396_at] cuticlin

Description F20D1.8 /REP_DB=WormBase Gene ID /WP=CE09501 /TR=Q93532 /GB=CAB01742.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=cuticlin
Cluster 6grp_high1_10_10 > 70      6grp_total > 91      4grp_total > 42      6grp_high1_sub > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 84.9
(-2.2)
A 		145.7
(3)
A 		136.5
(2.2)
A 		75.5
(-3)
A 		70
B 107.6
(1.7)
A 		93.2
(-0.7)
A 		115.2
(3)
P 		79.7
(-3)
A 		36
C 85.6
(-3)
M 		146.2
(0.7)
A 		90.2
(-2.7)
A 		185.1
(3)
P 		100
avr 92.7
(-3) 		128.4
(3) 		114
(0.6) 		113.4
(0.5) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 114.1
(-3)
A 		116.4
(-2.8)
A 		150.6
(0.5)
P 		176.8
(3)
P 		137.2
(-0.8)
A 		129.6
(-1.5)
A 		63
B 126.1
(1.8)
P 		131.5
(2.5)
P 		123.1
(1.5)
P 		85.8
(-3)
A 		135.8
(3)
P 		98.5
(-1.5)
P 		50
C 150.2
(1.2)
P 		139.2
(0.6)
P 		76.6
(-3)
A 		181
(3)
A 		141.1
(0.7)
P 		99.2
(-1.7)
P 		104
avr 130.1
(0.2) 		129
(0.1) 		116.8
(-1.8) 		147.9
(3) 		138
(1.5) 		109.1
(-3) 		39
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 30.9
(1.8)
A 		31.6
(2)
A 		35.7
(3)
A 		11
(-3)
A 		25
B 34.3
(3)
A 		23
(-0.9)
A 		26.7
(0.4)
P 		17
(-3)
A 		17
C 28.3
(-3)
M 		42
(3)
A 		31.4
(-1.6)
A 		31.2
(-1.7)
P 		14
avr 31.2
(2.5) 		32.2
(3) 		31.3
(2.6) 		19.7
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 21
(-3)
A 		41.4
(2.1)
A 		32.8
(-0)
P 		44.8
(3)
P 		41.4
(2.1)
A 		31.6
(-0.3)
A 		24
B 43.9
(0.9)
P 		43.8
(0.9)
P 		29.9
(-1.7)
P 		22.7
(-3)
A 		55.2
(3)
P 		36.7
(-0.4)
P 		33
C 55.7
(3)
P 		42.5
(0.8)
P 		19.5
(-3)
A 		36.4
(-0.2)
A 		45.7
(1.3)
P 		33.2
(-0.7)
P 		36
avr 40.2
(0.8) 		42.6
(1.6) 		27.4
(-3) 		34.6
(-0.8) 		47.4
(3) 		33.8
(-1.1) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188396_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17990
Sequence Type Exemplar sequence
Representative Public ID F20D1.8 NCBI
Target Description F20D1.8 /REP_DB=WormBase Gene ID /WP=CE09501 /TR=Q93532 /GB=CAB01742.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=cuticlin
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_078091(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078091 NCBI Caenorhabditis elegans F20D1.8 (cuticlin) mRNA, complete cds. 10/11 None
GENEFINDER00000040745 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14987378:14999508:-1 10/11 None
SNAP00000040736 ENSEMBL cdna:SNAP chromosome:CEL140:X:14994859:14997039:-1 9/11 None
F20D1.8 ENSEMBL cdna:known chromosome:CEL140:X:14994700:14998949:-1 gene:F20D1.8 10/11 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
chrX:14996072-14999508(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticlin
Ensembl F20D1.8
Entrez Gene 184721 Entrez gene
SwissProt Q93532 EMBL-EBI
WormBase CE37358 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB01742 Hypothetical protein F20D1.8 [Caenorhabditis elegans] ref|NP_510492.2| F20D1.8 [Caenorhabditis elegans] 0.0
blast CAE63271 Hypothetical protein CBG07648 [Caenorhabditis briggsae] 0.0
blast CAB01749 Hypothetical protein F20D1.7 [Caenorhabditis elegans] ref|NP_510491.2| F20D1.7 [Caenorhabditis elegans] 0.0
blast CAE63272 Hypothetical protein CBG07649 [Caenorhabditis briggsae] 0.0
blast CAB01742 Hypothetical protein F20D1.8 [Caenorhabditis elegans] ref|NP_510492.2| F20D1.8 [Caenorhabditis elegans] 1.0E-164
blast CAE63271 Hypothetical protein CBG07648 [Caenorhabditis briggsae] 1.0E-149
blast AAX32843 cuticlin-1 [Haemonchus contortus] 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 9.8E-18
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-11
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.3
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.63
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.51
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0096
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.21
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 9.8E-18
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-11
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 7.3E-4
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510492.2 1 370-392
F20D1.8 1 370-392
GENEFINDER00000040745 1 1021-1043
SNAP00000040736 1 274-296
Sequence
Target Sequence 
>C. ELEGANS:188396_AT
gggcatcatgatgaccgctacaatcatcatatcgttccatccaatgttcataacgaaaat
tgacaaatcttacaaggttcaatgcttttacgcagaggctcaaaaaactgtgacgcagca
attaaatgtggatattgccaaggaacaagaaaagaaaatatttgtgatggttggagatga
ggaaggcggaaccgtgagccatacaaccggagatcaaaaaaagctgcacaaattgaatga
tccttcaaccgaagagagaatcagctacaatgtgcccttaccggactgcaagtatagagt
tttgaccgagtcaaaaactgaggaagtcgcttttgcaacagttggacaaattgtgtatca
cgagtggtcttgtgaagctccaggacaaaatcaaacctcaccattttgtgtcactgtgca
ctcttgcaacgtgaaagatgagacaggcaaggaagtgcagatttttgacgaaaacggttg
cgcagttgacaagtacttaattaacaatttggagtacagcagtgacttgaccggaggtca
attatctcaggta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCATCATGATGACCGCTACAATC 505 493 354 Antisense
GCTACAATCATCATATCGTTCCATC 240 303 370 Antisense
TATCGTTCCATCCAATGTTCATAAC 209 659 383 Antisense
GGAAGGCGGAACCGTGAGCCATACA 648 531 534 Antisense
TGCCCTTACCGGACTGCAAGTATAG 199 585 626 Antisense
GGAAGTCGCTTTTGCAACAGTTGGA 328 531 675 Antisense
AAACCTCACCATTTTGTGTCACTGT 46 127 746 Antisense
GTCACTGTGCACTCTTGCAACGTGA 572 465 763 Antisense
AACGGTTGCGCAGTTGACAAGTACT 412 143 826 Antisense
GGAGTACAGCAGTGACTTGACCGGA 390 517 864 Antisense
GACCGGAGGTCAATTATCTCAGGTA 416 383 882 Antisense
Sequence Source Affymetrix Proprietary Database