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[172741_x_at] cuticlin

Description F41F3.3 /REP_DB=WormBase Gene ID /WP=CE07217 /TR=Q20281 /GB=AAA97981.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=cuticlin
Cluster 6grp_highest_10_10 > 45      6grp_high1_10_10 > 43      6grp_highest_nonorm > 18      6grp_total > 10      4grp_total > 49      6grp_high1_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41875
1 2 3 4 range
A 50.5
(-3)
A 		41925.3
(3)
P 		37299.8
(2.3)
P 		1076.2
(-2.9)
P 		41875
B 76
(-3)
A 		31738.5
(2.5)
P 		34691.3
(3)
P 		1386.2
(-2.8)
P 		34615
C 59.9
(-3)
A 		32357.3
(3)
P 		29216.4
(2.4)
P 		1255.2
(-2.8)
P 		32297
avr 62.1
(-3) 		35340.4
(3) 		33735.8
(2.7) 		1239.2
(-2.8) 		35278

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23848
1 2 3 4 5 6 range
A 8146.8
(-3)
P 		25076
(3)
P 		22888.7
(2.2)
P 		17714.5
(0.4)
P 		16865
(0.1)
P 		20134.8
(1.2)
P 		16929
B 4967.5
(-3)
P 		24350.2
(3)
P 		18949.7
(1.3)
P 		16462
(0.6)
P 		18458.4
(1.2)
P 		19174.6
(1.4)
P 		19383
C 7796
(-3)
P 		28815.2
(3)
P 		21661.8
(1)
P 		14697.6
(-1)
P 		19073.5
(0.2)
P 		17336.5
(-0.3)
P 		21019
avr 6970.1
(-3) 		26080.5
(3) 		21166.7
(1.5) 		16291.4
(-0.1) 		18132.3
(0.5) 		18882
(0.7) 		19110
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10164
1 2 3 4 range
A 18.4
(-3)
A 		9100.8
(2.6)
P 		9750.9
(3)
P 		157.5
(-2.9)
P 		9733
B 24.2
(-3)
A 		7838.7
(2.9)
P 		8038.8
(3)
P 		295.4
(-2.8)
P 		8015
C 19.8
(-3)
A 		9302.9
(2.5)
P 		10182.8
(3)
P 		211.6
(-2.9)
P 		10163
avr 20.8
(-3) 		8747.5
(2.6) 		9324.2
(3) 		221.5
(-2.9) 		9303

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7417
1 2 3 4 5 6 range
A 1501.8
(-3)
P 		8918.3
(3)
P 		4984.7
(-0.2)
P 		4492.8
(-0.6)
P 		5089.1
(-0.1)
P 		4902.2
(-0.2)
P 		7417
B 1728.4
(-3)
P 		8105.1
(3)
P 		4601.5
(-0.3)
P 		4360.2
(-0.5)
P 		7499.4
(2.4)
P 		7150.1
(2.1)
P 		6377
C 2889.7
(-3)
P 		8792.4
(3)
P 		5513.3
(-0.3)
P 		2955.7
(-2.9)
P 		6171.9
(0.3)
P 		5803.5
(-0)
P 		5903
avr 2040
(-3) 		8605.3
(3) 		5033.2
(-0.3) 		3936.2
(-1.3) 		6253.5
(0.9) 		5951.9
(0.6) 		6565
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172741_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15684
Sequence Type Exemplar sequence
Representative Public ID F41F3.3 NCBI
Target Description F41F3.3 /REP_DB=WormBase Gene ID /WP=CE07217 /TR=Q20281 /GB=AAA97981.1 /SUBMIT=ST.LOUIS /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_071850(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071850 NCBI Caenorhabditis elegans F41F3.3 (cuticlin) mRNA, complete cds. 11/11 None
SNAP00000023061 ENSEMBL cdna:SNAP chromosome:CEL140:V:4647583:4648053:-1 11/11 None
GENEFINDER00000023071 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4647583:4648053:-1 11/11 None
F41F3.3.1 ENSEMBL cdna:known chromosome:CEL140:V:4647408:4648053:-1 gene:F41F3.3 11/11 None
F41F3.3.3 ENSEMBL cdna:known chromosome:CEL140:V:4647408:4648053:-1 gene:F41F3.3 11/11 None
F41F3.3.2 ENSEMBL cdna:known chromosome:CEL140:V:4647426:4648053:-1 gene:F41F3.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_071825 1/11 Cross Hyb Matching Probes None
SNAP00000043270 1/11 Cross Hyb Matching Probes None
GENEFINDER00000043279 1/11 Cross Hyb Matching Probes None
Y47D7A.13.2 1/11 Cross Hyb Matching Probes A 
Y47D7A.13.1 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4647582-4648053(-) 100.0 100.0
Public Domain and Genome References
Gene Title cuticlin
Ensembl F41F3.3
Entrez Gene 178856 Entrez gene
SwissProt Q20281 EMBL-EBI
WormBase CE07217 Wormbase
Sequence
Target Sequence 
>C. ELEGANS:172741_X_AT
atgcaaaaactcatcatcgccttcgccgctgtctctgtcgcccacgccttcctcctccca
tccggaggaggcggtggatgcggatgtgctccaccaccaccaccaccatccccatgcgga
tgcggaggcggaggtggcctcgccctcccacaactcccaccactttcccttccatccctc
ggaggaggaggcggttgctgcccaccaccagccccagcttgcggaggaggatgcggagga
ggagttgctccagccccaatcggaggaggatacgctcaggccccacaagccccaatcgga
ggaggatacgccgccccacaagccccaatcggaggaggatacggaggagccccaatcgga
ggaggatcatacgccggagctggaccaatcggaggaggagccccaatcggaggaggagcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCAAAAACTCATCATCGCCTTCG 508 41 13 Antisense
GGAGGCGGTGGATGCGGATGTGCTC 442 515 79 Antisense
CACCATCCCCATGCGGATGCGGAGG 540 201 116 Antisense
CCCTTCCATCCCTCGGAGGAGGAGG 514 259 179 Antisense
CCCCAGCTTGCGGAGGAGGATGCGG 663 261 224 Antisense
TGCTCCAGCCCCAATCGGAGGAGGA 73 583 258 Antisense
CCACAAGCCCCAATCGGAGGAGGAT 425 275 295 Antisense
GGAGGAGGATACGGAGGAGCCCCAA 443 513 343 Antisense
GGAGCCCCAATCGGAGGAGGATCAT 485 521 358 Antisense
ATACGCCGGAGCTGGACCAATCGGA 628 21 381 Antisense
AGGAGCCCCAATCGGAGGAGGAGCC 327 55 408 Antisense
Sequence Source Affymetrix Proprietary Database