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[188490_at] cuticulin

Description F53B6.6 /REP_DB=WormBase Gene ID /WP=CE10900 /TR=Q9XVN2 /GB=CAB03116.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=cuticulin
Cluster 4grp_high_8_8 > 20      6grp_total > 11      4grp_total > 20      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 91.4
(-0.7)
P 		67.3
(-3)
A 		75
(-2.3)
P 		129.6
(3)
P 		62
B 104.1
(1.3)
P 		118.2
(3)
P 		67.4
(-3)
A 		98.9
(0.7)
P 		51
C 101.2
(-1.6)
P 		84.9
(-2.8)
P 		81.7
(-3)
P 		163.5
(3)
P 		82
avr 98.9
(-0.4) 		90.1
(-1.4) 		74.7
(-3) 		130.7
(3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 47.3
(-0.2)
M 		80
(2.4)
P 		22.9
(-2.1)
A 		12
(-3)
A 		87.4
(3)
P 		33
(-1.3)
A 		75
B 41.7
(-2.3)
A 		54.5
(-1.1)
P 		99.9
(3)
P 		37.9
(-2.6)
A 		33.9
(-3)
P 		52.9
(-1.3)
P 		66
C 65
(-0.5)
A 		93.5
(2.5)
P 		54.7
(-1.5)
A 		98
(3)
A 		50.5
(-2)
M 		40.8
(-3)
P 		57
avr 51.3
(-1.4) 		76
(3) 		59.2
(0) 		49.3
(-1.7) 		57.3
(-0.3) 		42.2
(-3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 33.3
(3)
P 		14.6
(-3)
A 		19.6
(-1.4)
P 		19
(-1.6)
P 		19
B 33.2
(3)
P 		29.2
(1.6)
P 		15.6
(-3)
A 		21.1
(-1.1)
P 		18
C 33.5
(3)
P 		24.4
(-3)
P 		28.5
(-0.3)
P 		27.6
(-0.9)
P 		9
avr 33.3
(3) 		22.7
(-2.3) 		21.2
(-3) 		22.6
(-2.3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 8.7
(-1.7)
M 		28.5
(3)
P 		5
(-2.5)
A 		3
(-3)
A 		26.4
(2.5)
P 		8
(-1.8)
A 		26
B 14.5
(-1.1)
A 		18.1
(0.4)
P 		24.3
(3)
P 		10
(-3)
A 		13.8
(-1.4)
P 		19.7
(1.1)
P 		14
C 24.1
(1.2)
A 		28.5
(3)
P 		13.9
(-2.9)
A 		19.7
(-0.5)
A 		16.3
(-1.9)
M 		13.6
(-3)
P 		15
avr 15.8
(-0.9) 		25
(3) 		14.4
(-1.5) 		10.9
(-3) 		18.8
(0.4) 		13.8
(-1.8) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188490_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1997
Sequence Type Exemplar sequence
Representative Public ID F53B6.6 NCBI
Target Description F53B6.6 /REP_DB=WormBase Gene ID /WP=CE10900 /TR=Q9XVN2 /GB=CAB03116.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=cuticulin
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_060009(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060009 NCBI Caenorhabditis elegans F53B6.6 (cuticulin) mRNA, complete cds. 11/11 None
SNAP00000012070 ENSEMBL cdna:SNAP chromosome:CEL140:I:8962683:8965518:-1 10/11 None
GENEFINDER00000012078 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8962683:8965606:-1 10/11 None
F53B6.6 ENSEMBL cdna:known chromosome:CEL140:I:8962683:8965606:-1 gene:F53B6.6 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:8962613-8965537(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticulin
Ensembl F53B6.6
Entrez Gene 186153 Entrez gene
SwissProt Q9XVN2 EMBL-EBI
WormBase CE10900 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03116 Hypothetical protein F53B6.6 [Caenorhabditis elegans] ref|NP_492410.1| F53B6.6 [Caenorhabditis elegans] 0.0
blast CAE67000 Hypothetical protein CBG12399 [Caenorhabditis briggsae] 0.0
blast CAE70602 Hypothetical protein CBG17277 [Caenorhabditis briggsae] 1.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-32
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492410.1 1 569-591
F53B6.6 1 569-591
SNAP00000012070 1 494-516
GENEFINDER00000012078 1 544-566
Sequence
Target Sequence 
>C. ELEGANS:188490_AT
gctccaaatccttatcgtcgtgatagtccaataaatgatacatcggaagatgatattatt
atgcaagtagtgacattaagaactactgtacctactgtatcccatacaccggatttcgtg
acatttaagccagttgttcatgcaaaaaacagtatgaatatagattttcggcgaggaggt
agtgaatcaagtactccctcaacttcatcatcaaccaaagttcggagaacagcaggagat
atggaaactgatgtttccgttgatgttatcgttcttccagttgaggataaagagcgaaaa
ggtttgaattttcaaagtttatctgaaaagaaattagggtgtttaaaattagaaaagaaa
cgtttcgcggctctttacacaaatattccaccacaatctctatcattccaatcatcttct
gaagtttgtttgtccaagacatctacagtaatattctcaacggcgatcctccttgcatta
ttctgttgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCCAAATCCTTATCGTCGTGATA 80 299 1273 Antisense
GAACTACTGTACCTACTGTATCCCA 504 349 1352 Antisense
GTATCCCATACACCGGATTTCGTGA 198 455 1369 Antisense
GTAGTGAATCAAGTACTCCCTCAAC 192 457 1451 Antisense
CCCTCAACTTCATCATCAACCAAAG 20 261 1468 Antisense
TGATGTTATCGTTCTTCCAGTTGAG 132 565 1533 Antisense
TCGCGGCTCTTTACACAAATATTCC 620 599 1637 Antisense
AATATTCCACCACAATCTCTATCAT 103 175 1654 Antisense
TCTCTATCATTCCAATCATCTTCTG 186 613 1669 Antisense
GTAATATTCTCAACGGCGATCCTCC 591 461 1720 Antisense
ATCCTCCTTGCATTATTCTGTTGTG 331 39 1738 Antisense
Sequence Source Affymetrix Proprietary Database