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[184213_s_at]

Description F53G12.8 /REP_DB=WormBase Gene ID /WP=CE11020 /TR=O01800 /GB=AAB54163.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 75      4grp_total > 25      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 24.4
(-3)
A 		60.1
(2.6)
P 		25.4
(-2.8)
A 		62.6
(3)
M 		38
B 5.1
(-3)
A 		39.5
(2.2)
A 		44.6
(3)
A 		7.1
(-2.7)
A 		40
C 25.2
(-2.3)
A 		30.7
(-1.7)
A 		19.2
(-3)
A 		71.7
(3)
A 		53
avr 18.2
(-3) 		43.4
(2.2) 		29.7
(-0.6) 		47.1
(3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 35.2
(-0.4)
A 		8.8
(-3)
A 		41.8
(0.3)
P 		61.1
(2.2)
A 		49.7
(1.1)
P 		68.9
(3)
A 		60
B 23.4
(-1)
A 		3.4
(-3)
A 		9.6
(-2.4)
A 		24.7
(-0.9)
A 		43.6
(1)
P 		63.4
(3)
P 		60
C 7.1
(-3)
A 		45.6
(1.6)
A 		47.1
(1.8)
P 		57
(3)
A 		21.1
(-1.3)
A 		39
(0.8)
A 		50
avr 21.9
(-2.6) 		19.3
(-3) 		32.8
(-0.9) 		47.6
(1.5) 		38.1
(-0) 		57.1
(3) 		38
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 8.9
(-0.9)
A 		13.1
(3)
P 		6.6
(-3)
A 		9.2
(-0.6)
M 		7
B 1.6
(-2.9)
A 		9.8
(2.7)
A 		10.3
(3)
A 		1.5
(-3)
A 		9
C 8.3
(-1.2)
A 		8.8
(-0.7)
A 		6.7
(-3)
A 		12.1
(3)
A 		5
avr 6.3
(-3) 		10.6
(3) 		7.9
(-0.8) 		7.6
(-1.2) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 6.5
(-1.5)
A 		3.1
(-3)
A 		9.1
(-0.4)
P 		15.5
(2.4)
A 		15
(2.2)
P 		16.8
(3)
A 		14
B 8.1
(-1.1)
A 		1.1
(-3)
A 		2.3
(-2.7)
A 		6.5
(-1.6)
A 		17.7
(1.4)
P 		23.6
(3)
P 		23
C 2.6
(-3)
A 		13.9
(3)
A 		12
(2)
P 		11.5
(1.7)
A 		6.8
(-0.8)
A 		13
(2.5)
A 		11
avr 5.7
(-3) 		6
(-2.9) 		7.8
(-2) 		11.2
(-0.3) 		13.2
(0.7) 		17.8
(3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 184213_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2543
Sequence Type Exemplar sequence
Representative Public ID F53G12.8 NCBI
Target Description F53G12.8 /REP_DB=WormBase Gene ID /WP=CE11020 /TR=O01800 /GB=AAB54163.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058277
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000020935 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:112365:114681:1 None
SNAP00000020922 ENSEMBL cdna:SNAP chromosome:CEL140:I:114106:117401:1 None
NM_058277 NCBI Caenorhabditis elegans F53G12.8 (F53G12.8) mRNA, complete cds. None
F53G12.8 ENSEMBL cdna:known chromosome:CEL140:I:113807:114681:1 gene:F53G12.8 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:113313-114799(+) 86.52 86.83
Public Domain and Genome References
Gene Title
Ensembl F53G12.8
Entrez Gene 171604 Entrez gene
SwissProt O01800 EMBL-EBI
WormBase CE36697 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM15578 Hypothetical protein F53G12.9 [Caenorhabditis elegans] ref|NP_490677.2| F53G12.9 [Caenorhabditis elegans] 1.0E-135
blast AAB54156 Collagen protein 45 [Caenorhabditis elegans] ref|NP_490679.1| COLlagen family member (col-45) [Caenorhabditis elegans] 1.0E-105
blast CAE60316 Hypothetical protein CBG03907 [Caenorhabditis briggsae] 2.0E-91
blast T29033 hypothetical protein F53G12.9 - Caenorhabditis elegans 6.0E-74
blast T29032 hypothetical protein F53G12.8 - Caenorhabditis elegans 3.0E-68
blast AAM15577 Hypothetical protein F53G12.8 [Caenorhabditis elegans] ref|NP_490678.3| F53G12.8 [Caenorhabditis elegans] 1.0E-37
blast T29032 hypothetical protein F53G12.8 - Caenorhabditis elegans 4.0E-26
blast AAM15577 Hypothetical protein F53G12.8 [Caenorhabditis elegans] ref|NP_490678.3| F53G12.8 [Caenorhabditis elegans] 5.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 1.6E-7
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.6E-12
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.4E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490678.3 1 25-43
F53G12.8 1 25-43
Sequence
Target Sequence 
>C. ELEGANS:184213_S_AT
ttcttctcccaattttgttgtgcggtgggaaaaagaaaaaagcgaacaaaaatgtgaaag
aggcgtcgaaagtgaactcactggttccaccgtcgacctctacggacccgctgaagacta
aagagaaggagatgaaaaaagaagaagctccgggagcaccagacgccccgactaagccga
aaagtcctccgaaaccagtggtccaggacacgaaacttgctgaagtgctgcctgaaagtg
agaaggaagacgaaatgaagaatggtattcagttgccgaatccgccgaaaaatttgaaat
gcgaaagtgaaattgctccaaaggaaaagccggcggctgacnnnnnnnnnnnnnnnnnnn
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntg
acgaaattataattcctcgaaatttatttgcgcgtcatatatggtgcattgagtccatag
agacttc

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTCTCCCAATTTTGTTGTGCGG 263 689 365 Antisense
AAAGTGAACTCACTGGTTCCACCGT 532 121 433 Antisense
CCTCTACGGACCCGCTGAAGACTAA 277 265 461 Antisense
GTCCTCCGAAACCAGTGGTCCAGGA 195 475 548 Antisense
GTGGTCCAGGACACGAAACTTGCTG 652 487 562 Antisense
AACTTGCTGAAGTGCTGCCTGAAAG 287 137 578 Antisense
TCAGTTGCCGAATCCGCCGAAAAAT 615 621 633 Antisense
GCTCCAAAGGAAAAGCCGGCGGCTG 156 297 679 Antisense
ATTCCTCGAAATTTATTTGCGCGTC 495 5 796 Antisense
TGCGCGTCATATATGGTGCATTGAG 238 583 813 Antisense
GGTGCATTGAGTCCATAGAGACTTC 360 501 827 Antisense
Sequence Source Affymetrix Proprietary Database