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[188336_at] cuticlin

Description F53F1.1 /REP_DB=WormBase Gene ID /WP=CE10932 /TR=Q9XVM7 /GB=CAB03124.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=cuticlin
Cluster 6grp_total > 10      4grp_total > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 10.1
(-1)
A 		25.1
(3)
A 		2.8
(-3)
A 		6.6
(-2)
A 		22
B 3.6
(-3)
A 		26.2
(2.8)
A 		26.8
(3)
A 		4
(-2.9)
A 		23
C 2.1
(-3)
A 		29.1
(2.8)
A 		29.6
(2.9)
A 		30.2
(3)
A 		28
avr 5.3
(-3) 		26.8
(3) 		19.7
(1) 		13.6
(-0.7) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 3.9
(-2.8)
A 		13.7
(-0.9)
A 		33.8
(3)
A 		18.1
(-0)
A 		2.7
(-3)
A 		3.2
(-2.9)
A 		31
B 3.9
(-3)
A 		26.3
(1.8)
A 		32.1
(3)
A 		29.2
(2.4)
A 		19.5
(0.3)
A 		25.2
(1.5)
A 		28
C 1.6
(-3)
A 		37
(3)
A 		2.9
(-2.8)
A 		3.4
(-2.7)
A 		23.2
(0.7)
A 		5.5
(-2.3)
A 		35
avr 3.1
(-3) 		25.7
(3) 		22.9
(2.3) 		16.9
(0.7) 		15.1
(0.2) 		11.3
(-0.8) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 3.7
(0.8)
A 		5.4
(3)
A 		0.7
(-3)
A 		1
(-2.6)
A 		5
B 1.2
(-2.7)
A 		6.5
(3)
A 		6.2
(2.7)
A 		0.9
(-3)
A 		6
C 0.7
(-3)
A 		8.4
(1.8)
A 		10.3
(3)
A 		5.1
(-0.3)
A 		10
avr 1.9
(-3) 		6.8
(3) 		5.7
(1.7) 		2.3
(-2.5) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.7
(-3)
A 		4.9
(0.8)
A 		7.4
(3)
A 		4.6
(0.5)
A 		0.8
(-2.9)
A 		0.8
(-2.9)
A 		7
B 1.4
(-3)
A 		8.8
(2.6)
A 		7.8
(1.8)
A 		7.7
(1.7)
A 		7.9
(1.9)
A 		9.4
(3)
A 		8
C 0.6
(-3)
A 		11.3
(3)
A 		0.7
(-2.9)
A 		0.7
(-2.9)
A 		7.5
(0.9)
A 		1.8
(-2.3)
A 		11
avr 0.9
(-3) 		8.3
(3) 		5.3
(0.6) 		4.3
(-0.2) 		5.4
(0.6) 		4
(-0.5) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188336_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14422
Sequence Type Exemplar sequence
Representative Public ID F53F1.1 NCBI
Target Description F53F1.1 /REP_DB=WormBase Gene ID /WP=CE10932 /TR=Q9XVM7 /GB=CAB03124.1 /SUBMIT=HINXTON /CHR=5 /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_073920(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073920 NCBI Caenorhabditis elegans F53F1.1 (cuticlin) mRNA, complete cds. 11/11 None
SNAP00000038177 ENSEMBL cdna:SNAP chromosome:CEL140:V:13406623:13408510:-1 10/11 None
GENEFINDER00000038196 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13406982:13408864:-1 11/11 None
F53F1.1 ENSEMBL cdna:known chromosome:CEL140:V:13407043:13408606:-1 gene:F53F1.1 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
chrV:13407042-13408606(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticlin
Ensembl F53F1.1
Entrez Gene 186168 Entrez gene
SwissProt Q9XVM7 EMBL-EBI
WormBase CE10932 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03124 Hypothetical protein F53F1.1 [Caenorhabditis elegans] ref|NP_506321.1| F53F1.1 [Caenorhabditis elegans] 0.0
blast CAB03124 Hypothetical protein F53F1.1 [Caenorhabditis elegans] ref|NP_506321.1| F53F1.1 [Caenorhabditis elegans] 1.0E-175
blast CAB03124 Hypothetical protein F53F1.1 [Caenorhabditis elegans] ref|NP_506321.1| F53F1.1 [Caenorhabditis elegans] 1.0E-148
blast CAE62606 Hypothetical protein CBG06722 [Caenorhabditis briggsae] 1.0E-129
blast CAE62606 Hypothetical protein CBG06722 [Caenorhabditis briggsae] 1.0E-117
blast CAA90355 Hypothetical protein F22B5.3 [Caenorhabditis elegans] ref|NP_495780.1| F22B5.3 [Caenorhabditis elegans] 2.0E-78
blast CAA90355 Hypothetical protein F22B5.3 [Caenorhabditis elegans] ref|NP_495780.1| F22B5.3 [Caenorhabditis elegans] 6.0E-76
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 4.59999990463257
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.6E-23
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 6.1E-29
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.6E-23
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000038177 1 341-363
Sequence
Target Sequence 
>C. ELEGANS:188336_AT
gccaacttgtacttatcagatccttagtggtggtccgttcggtgaacctgtagaatttgg
tttaataggtcagcaggtttatcatcagtggaagtgtgataatgataaaggtatgataat
tcttataaaagaagactcattctgcatggtagttcacacgtgttctgttgacgatggacg
aggtgaaacctcatttctcatagactcgaatgggtgctcaattgataagtttctattgtc
gaaccttgagtatccgggaaacttactcgctgggcaagaagctcatgtgtataagtttgc
tgatcgagatgctcttttcttccagtgtcagatatcaattaccgtcaaagagccagacca
ggaatgcgtgagaccaatatgtgaagatgtagaaggcggtggagcacccgttgttgggcc
acctccatatggtatgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAACTTGTACTTATCAGATCCTT 144 279 552 Antisense
CAGATCCTTAGTGGTGGTCCGTTCG 375 205 568 Antisense
GGTCAGCAGGTTTATCATCAGTGGA 223 503 619 Antisense
GAAGACTCATTCTGCATGGTAGTTC 670 339 682 Antisense
GGTAGTTCACACGTGTTCTGTTGAC 276 505 699 Antisense
GAAACCTCATTTCTCATAGACTCGA 224 359 736 Antisense
ATTGTCGAACCTTGAGTATCCGGGA 195 3 786 Antisense
GCTGATCGAGATGCTCTTTTCTTCC 30 297 850 Antisense
GAGCCAGACCAGGAATGCGTGAGAC 469 385 901 Antisense
AGAAGGCGGTGGAGCACCCGTTGTT 48 75 942 Antisense
TTGGGCCACCTCCATATGGTATGAT 532 705 965 Antisense
Sequence Source Affymetrix Proprietary Database