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[188297_at] cuticlin

Description T04F8.4 /REP_DB=WormBase Gene ID /WP=CE03617 /TR=Q22164 /GB=CAA91480.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=cuticlin
Cluster 6grp_total > 11      4grp_total > 57      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 123
1 2 3 4 range
A 48.6
(-0.6)
A 		108.9
(3)
A 		96.2
(2.2)
P 		9.3
(-3)
A 		100
B 12.1
(-3)
A 		90.3
(0.9)
P 		131.2
(3)
P 		31.8
(-2)
A 		119
C 35.2
(-3)
A 		132.2
(3)
P 		84.3
(0)
P 		35.2
(-3)
A 		97
avr 32
(-2.5) 		110.5
(3) 		103.9
(2.5) 		25.4
(-3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 120.9
(2.3)
P 		132.2
(3)
P 		96.5
(0.8)
A 		63.7
(-1.3)
A 		63
(-1.3)
A 		35.8
(-3)
A 		96
B 78.3
(-2)
P 		156.7
(3)
P 		121.2
(0.7)
P 		69.8
(-2.6)
P 		67.2
(-2.8)
A 		63.4
(-3)
P 		93
C 47.2
(-2.1)
P 		154
(3)
P 		71.6
(-0.9)
P 		58.4
(-1.5)
A 		42.2
(-2.3)
A 		27.8
(-3)
A 		126
avr 82.1
(-0.7) 		147.6
(3) 		96.4
(0.1) 		64
(-1.8) 		57.5
(-2.1) 		42.3
(-3) 		105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 17.7
(1.1)
A 		23.6
(2.6)
A 		25.1
(3)
P 		1.4
(-3)
A 		24
B 3.9
(-3)
A 		22.3
(1.2)
P 		30.4
(3)
P 		6.8
(-2.3)
A 		27
C 11.7
(-1.9)
A 		38
(3)
P 		29.4
(1.4)
P 		5.9
(-3)
A 		32
avr 11.1
(-1.4) 		28
(2.9) 		28.3
(3) 		4.7
(-3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 22.3
(-0.9)
P 		47
(3)
P 		21
(-1.1)
A 		16.2
(-1.8)
A 		19
(-1.4)
A 		8.7
(-3)
A 		38
B 27.2
(-1.5)
P 		52.2
(3)
P 		29.4
(-1.1)
P 		18.5
(-3)
P 		27.3
(-1.4)
A 		23.7
(-2.1)
P 		34
C 17.5
(-1.7)
P 		47
(3)
P 		18.2
(-1.6)
P 		11.7
(-2.6)
A 		13.7
(-2.3)
A 		9.3
(-3)
A 		38
avr 22.3
(-1.6) 		48.7
(3) 		22.9
(-1.4) 		15.5
(-2.7) 		20
(-1.9) 		13.9
(-3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188297_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16413
Sequence Type Exemplar sequence
Representative Public ID T04F8.4 NCBI
Target Description T04F8.4 /REP_DB=WormBase Gene ID /WP=CE03617 /TR=Q22164 /GB=CAA91480.1 /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_077545(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077545 NCBI Caenorhabditis elegans T04F8.4 (cuticlin) mRNA, complete cds. 11/11 None
SNAP00000020398 ENSEMBL cdna:SNAP chromosome:CEL140:X:11648279:11650877:-1 11/11 None
GENEFINDER00000020407 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11648279:11650752:-1 11/11 None
T04F8.4 ENSEMBL cdna:known chromosome:CEL140:X:11648279:11650839:-1 gene:T04F8.4 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
chrX:11648278-11650839(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticlin
Ensembl T04F8.4
Entrez Gene 188066 Entrez gene
SwissProt Q22164 EMBL-EBI
WormBase CE03617 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91480 Hypothetical protein T04F8.4 [Caenorhabditis elegans] ref|NP_509946.1| T04F8.4 [Caenorhabditis elegans] 0.0
blast CAE70602 Hypothetical protein CBG17277 [Caenorhabditis briggsae] 1.0E-166
blast CAE70602 Hypothetical protein CBG17277 [Caenorhabditis briggsae] 1.0E-165
blast CAE70602 Hypothetical protein CBG17277 [Caenorhabditis briggsae] 1.0E-164
blast CAE73050 Hypothetical protein CBG20420 [Caenorhabditis briggsae] 1.0E-62
Protein Domains
Database ID Description E-Value
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.4E-62
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.4E-62
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 1.3E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509946.1 1 346-368
T04F8.4 1 346-368
SNAP00000020398 1 347-369
GENEFINDER00000020407 2 97-119,346-368
Sequence
Target Sequence 
>C. ELEGANS:188297_AT
tacgggctactcgttcatagttgttacgtcgaagatggtcaaggagagaaacaaatgata
attgacgagagaggatgtcacactgatcgattactactaggagatcctacttatgtggaa
gcattaaacatggcctacagagaatcttttgttttcaagtttgcagatagaattgcagtg
agattccaatgtgagattagattatgtttgaaagatgatggtggctgtgatggaattacg
ccaccaatgtgctcattcaaagatgccaacagcaatgagaaacaaatagtcaaacgtaat
gcaagaaccttcaaaccaaaagatgctgatatgttttctcaaaccgtgtatgtgatggat
aaagaaaatggagatagcacatctgcccaggcagccgaaattcgagagctggatcctcaa
acaatctgtcttgcacccaaacttttagtggttgcggtcacatttttcacatttatattt
gttctttttgtgacaactattctcgttgtagtttatcatcgtta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACGGGCTACTCGTTCATAGTTGTT 632 645 601 Antisense
GTCACACTGATCGATTACTACTAGG 155 465 677 Antisense
GGCTGTGATGGAATTACGCCACCAA 411 539 823 Antisense
TTACGCCACCAATGTGCTCATTCAA 204 683 836 Antisense
AATGGAGATAGCACATCTGCCCAGG 251 163 967 Antisense
TCTGCCCAGGCAGCCGAAATTCGAG 413 607 982 Antisense
GAAATTCGAGAGCTGGATCCTCAAA 447 363 997 Antisense
GGATCCTCAAACAATCTGTCTTGCA 417 513 1011 Antisense
TCTGTCTTGCACCCAAACTTTTAGT 231 609 1025 Antisense
TAGTGGTTGCGGTCACATTTTTCAC 585 653 1046 Antisense
TTCTCGTTGTAGTTTATCATCGTTA 405 693 1100 Antisense
Sequence Source Affymetrix Proprietary Database