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[172415_x_at]

Description F56C9.2 /REP_DB=WormBase Gene ID /WP=CE01321 /TR=Q20868 /GB=AAK18958.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 11      4grp_total > 20      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 263
1 2 3 4 range
A 139.7
(0.6)
A 		158.7
(1.2)
A 		22.8
(-3)
A 		219.2
(3)
A 		196
B 80.2
(2.6)
A 		59.4
(-3)
A 		64.5
(-1.6)
A 		81.7
(3)
A 		22
C 82.6
(-2.8)
A 		107.5
(-2.1)
A 		74.4
(-3)
A 		286.1
(3)
A 		212
avr 100.8
(-1) 		108.5
(-0.7) 		53.9
(-3) 		195.7
(3) 		142

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 110.6
(1.4)
A 		86.6
(-0.4)
A 		62.5
(-2.3)
A 		53.1
(-3)
A 		130.9
(3)
A 		53
(-3)
A 		78
B 92.3
(3)
A 		80.9
(0.7)
A 		77.3
(-0)
A 		67.2
(-2)
A 		62.7
(-2.9)
A 		62.4
(-3)
A 		30
C 32.7
(-2.1)
A 		162.2
(3)
A 		118.3
(1.3)
A 		120.4
(1.3)
A 		10.6
(-3)
A 		91
(0.2)
A 		152
avr 78.5
(-1.5) 		109.9
(3) 		86
(-0.4) 		80.2
(-1.3) 		68.1
(-3) 		68.8
(-2.9) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 50.9
(3)
A 		34.5
(0.8)
A 		6
(-3)
A 		32.1
(0.5)
A 		45
B 25.6
(3)
A 		14.7
(-3)
A 		14.9
(-2.9)
A 		17.4
(-1.5)
A 		11
C 27.3
(-2.6)
A 		30.9
(-1.7)
A 		25.9
(-3)
A 		48.2
(3)
A 		22
avr 34.6
(3) 		26.7
(0.5) 		15.6
(-3) 		32.6
(2.4) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 20.4
(-1.3)
A 		30.8
(1)
A 		13.6
(-2.8)
A 		13.5
(-2.9)
A 		39.5
(3)
A 		12.9
(-3)
A 		27
B 32.1
(3)
A 		26.9
(0.8)
A 		18.8
(-2.6)
A 		17.8
(-3)
A 		25.5
(0.2)
A 		23.3
(-0.7)
A 		14
C 12.1
(-1.9)
A 		49.5
(3)
A 		30.1
(0.5)
A 		24.2
(-0.3)
A 		3.4
(-3)
A 		30.5
(0.5)
A 		46
avr 21.5
(-2) 		35.7
(3) 		20.8
(-2.2) 		18.5
(-3) 		22.8
(-1.5) 		22.2
(-1.7) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172415_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7853
Sequence Type Exemplar sequence
Representative Public ID F56C9.2 NCBI
Target Description F56C9.2 /REP_DB=WormBase Gene ID /WP=CE01321 /TR=Q20868 /GB=AAK18958.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_066214(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066214 NCBI Caenorhabditis elegans F56C9.2 (F56C9.2) mRNA, complete cds. 11/11 None
SNAP00000032856 ENSEMBL cdna:SNAP chromosome:CEL140:III:7326216:7328746:1 11/11 None
GENEFINDER00000032865 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7326216:7328746:1 11/11 None
F56C9.2 ENSEMBL cdna:known chromosome:CEL140:III:7326216:7328746:1 gene:F56C9.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075922 3/11 Cross Hyb Matching Probes A 
NM_067753 1/11 Cross Hyb Matching Probes A 
NM_059031 3/11 Cross Hyb Matching Probes A 
NM_068720 4/11 Cross Hyb Matching Probes A 
GENEFINDER00000028191 3/11 Cross Hyb Matching Probes None
SNAP00000028189 3/11 Cross Hyb Matching Probes None
SNAP00000043608 3/11 Cross Hyb Matching Probes None
GENEFINDER00000043621 3/11 Cross Hyb Matching Probes None
SNAP00000033621 1/11 Cross Hyb Matching Probes None
GENEFINDER00000033630 1/11 Cross Hyb Matching Probes None
SNAP00000003803 4/11 Cross Hyb Matching Probes None
GENEFINDER00000003821 4/11 Cross Hyb Matching Probes None
SNAP00000007753 1/11 Cross Hyb Matching Probes None
GENEFINDER00000007760 1/11 Cross Hyb Matching Probes None
SNAP00000032798 4/11 Cross Hyb Matching Probes None
SNAP00000021928 3/11 Cross Hyb Matching Probes None
GENEFINDER00000021982 3/11 Cross Hyb Matching Probes None
W09C3.8 3/11 Cross Hyb Matching Probes A 
F02E9.8 4/11 Cross Hyb Matching Probes A 
Y76B12C.5 1/11 Cross Hyb Matching Probes A 
C34D4.5 4/11 Cross Hyb Matching Probes A 
Y75D11A.4 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7326213-7328744(+) 100.0 100.0
chrIV:7145310-7147215(+) 70.5 70.5
Public Domain and Genome References
Ensembl F56C9.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498615 F56C9.2 [Caenorhabditis elegans] 0.0
blast NP_500154 Y76B12C.5 [Caenorhabditis elegans] 0.0
blast AAB00700 Hypothetical protein C34D4.5 [Caenorhabditis elegans] ref|NP_501121.1| C34D4.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 3.9E-48
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 3.0E-27
Sequence
Target Sequence 
>C. ELEGANS:172415_X_AT
tgccaggttgtcgctatctggggcgctggatcgacatatctggctcaattgacgaagaaa
tctcgaggcgaataagagctggttggggtgctctggttggaatcaaagaagtcttgagaa
tcatgccaaacaaggaaagaataatcctcttcaagcaaaatgtgctaccagctctcctgt
atgctagtgaaacttggacttgtaatgctggatccacgctgagactcaaaagaactgtct
ccggtctcatcgacgctgcagaaattcgaggctggaacttcaacttggatcgttacctcc
ttgcaaaacaatcaagatttacaggacacattctacggagagatccaaaccgatggacaa
aaatctgcacggaatgggacccgagccacaacaaaaattggaaacgggccgttggaggac
agaagaaaagatgggcaaaggacatcgacgaagaatacgcaaaattccaccataattccg
ccatgtcgggacaagtcgtcgttgggagaagaagactaggaatgctcacaccgaaggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCAGGTTGTCGCTATCTGGGGCG 160 585 1721 Antisense
GATCGACATATCTGGCTCAATTGAC 653 417 1749 Antisense
GTTGGGGTGCTCTGGTTGGAATCAA 191 437 1802 Antisense
TACCAGCTCTCCTGTATGCTAGTGA 683 649 1886 Antisense
GTAATGCTGGATCCACGCTGAGACT 76 463 1922 Antisense
TCAAAAGAACTGTCTCCGGTCTCAT 28 631 1946 Antisense
GGTCTCATCGACGCTGCAGAAATTC 399 501 1963 Antisense
TCAACTTGGATCGTTACCTCCTTGC 31 631 2000 Antisense
GAATGGGACCCGAGCCACAACAAAA 478 331 2092 Antisense
TCCACCATAATTCCGCCATGTCGGG 488 587 2186 Antisense
GACTAGGAATGCTCACACCGAAGGT 214 369 2234 Antisense
Sequence Source Affymetrix Proprietary Database