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[172115_x_at]

Description F54H12.4 /REP_DB=WormBase Gene ID /WP=CE00546 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 92      4grp_total > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 364
1 2 3 4 range
A 49.9
(0.4)
A 		33.7
(-0.9)
A 		7
(-3)
A 		82.1
(3)
P 		75
B 25.3
(-0.5)
A 		10.9
(-3)
A 		18
(-1.8)
A 		45.7
(3)
A 		35
C 27.4
(-2.6)
A 		3.5
(-3)
A 		11.9
(-2.9)
A 		367.1
(3)
P 		364
avr 34.2
(-2.1) 		16
(-2.9) 		12.3
(-3) 		165
(3) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 4.2
(-3)
A 		10
(-2.2)
A 		24
(-0.1)
A 		5.1
(-2.9)
A 		45.5
(3)
A 		16.6
(-1.2)
A 		41
B 24.2
(-0.3)
A 		15.6
(-1.4)
A 		49.9
(3)
A 		21.3
(-0.6)
A 		16.7
(-1.2)
A 		2.6
(-3)
A 		47
C 55
(3)
A 		46.4
(2)
P 		3.5
(-3)
A 		44.8
(1.8)
A 		28.9
(-0)
A 		24.6
(-0.5)
A 		52
avr 27.8
(2) 		24
(0.6) 		25.8
(1.3) 		23.7
(0.5) 		30.4
(3) 		14.6
(-3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 18.2
(3)
A 		7.3
(-1)
A 		1.8
(-3)
A 		12
(0.7)
P 		16
B 8.1
(1.6)
A 		2.7
(-3)
A 		4.2
(-1.7)
A 		9.7
(3)
A 		7
C 9.1
(-2.2)
A 		1
(-3)
A 		4.2
(-2.7)
A 		61.9
(3)
P 		61
avr 11.8
(-0.9) 		3.7
(-2.9) 		3.4
(-3) 		27.9
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 0.8
(-3)
A 		3.6
(-1.7)
A 		5.2
(-1)
A 		1.3
(-2.8)
A 		13.7
(3)
A 		4
(-1.5)
A 		13
B 8.4
(1)
A 		5.2
(-0.7)
A 		12.1
(3)
A 		5.6
(-0.5)
A 		6.8
(0.1)
A 		1
(-3)
A 		11
C 20.4
(3)
A 		14.2
(1.1)
P 		0.9
(-3)
A 		9
(-0.5)
A 		9.4
(-0.4)
A 		8.2
(-0.8)
A 		20
avr 9.9
(2.9) 		7.7
(0.5) 		6.1
(-1.2) 		5.3
(-2) 		10
(3) 		4.4
(-3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172115_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6704
Sequence Type Exemplar sequence
Representative Public ID F54H12.4 NCBI
Target Description F54H12.4 /REP_DB=WormBase Gene ID /WP=CE00546 /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_066333(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066333 NCBI Caenorhabditis elegans F54H12.4 (F54H12.4) mRNA, complete cds. 11/11 None
GENEFINDER00000022469 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7960429:7962665:-1 10/11 None
SNAP00000022458 ENSEMBL cdna:SNAP chromosome:CEL140:III:7961520:7962641:-1 10/11 None
F54H12.4 ENSEMBL cdna:known chromosome:CEL140:III:7961520:7962665:-1 gene:F54H12.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_070397 7/11 Cross Hyb Matching Probes A 
GENEFINDER00000009243 2/11 Cross Hyb Matching Probes None
SNAP00000003492 7/11 Cross Hyb Matching Probes None
GENEFINDER00000003616 7/11 Cross Hyb Matching Probes None
Y57G11C.18 7/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7961517-7962663(-) 100.0 100.0
chrIV:14840277-14841423(-) 97.87 97.87
Public Domain and Genome References
Gene Title
Ensembl F54H12.4
Entrez Gene 186268 Entrez gene
SwissProt P34458 EMBL-EBI
WormBase CE00546 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA28053 Hypothetical protein F54H12.4 [Caenorhabditis elegans] ref|NP_498734.1| F54H12.4 [Caenorhabditis elegans] sp|P34458|YMD4_CAEEL Hypothetical protein F54H12.4 in chromosome III 0.0
blast CAB16519 Hypothetical protein Y57G11C.18 [Caenorhabditis elegans] ref|NP_502798.1| Y57G11C.18 [Caenorhabditis elegans] 0.0
blast CAB16520 Hypothetical protein Y57G11C.19 [Caenorhabditis elegans] ref|NP_502797.1| Y57G11C.19 [Caenorhabditis elegans] 0.0
blast T32093 hypothetical protein K09F6.1 - Caenorhabditis elegans 1.0E-158
blast T32093 hypothetical protein K09F6.1 - Caenorhabditis elegans 1.0E-153
blast T32093 hypothetical protein K09F6.1 - Caenorhabditis elegans 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.1E-22
Sequence
Target Sequence 
>C. ELEGANS:172115_X_AT
ggaaccccaaaaacatgcagccggaaaaataaaaaagtccaagaatcaaaagaaagacgg
aactctcagtagacctttgggtaaaaaggaaaataagagtgtgcaagacgccacttcaaa
caagaggcaaaagtttgatctcaagagaggaaagagcatgaataacgtgaaaccgcgaaa
actttataaaatgcagctggatgaggaagatgaagatgaagagccgatggttgatgagac
gccacaaaacactgagatttcaatcaaaaagagaccatttcaacaggattccacaaaaaa
cttaaacaagaggcagaaatttgatttgaaaagaagaaagaatatgagtagagtgaggcc
aaacaaaatttacaagatgcaaaacttgaaacgcaacatttcttcaaccatcccagataa
tggtacaaatatccctgctgccaaaaggcgcgttcttcgcggatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACCCCAAAAACATGCAGCCGGA 19 531 525 Antisense
GACGGAACTCTCAGTAGACCTTTGG 198 375 580 Antisense
GTGTGCAAGACGCCACTTCAAACAA 4 487 623 Antisense
GAGCCGATGGTTGATGAGACGCCAC 312 385 745 Antisense
GAGACGCCACAAAACACTGAGATTT 504 393 760 Antisense
GAGACCATTTCAACAGGATTCCACA 98 395 795 Antisense
GAAACGCAACATTTCTTCAACCATC 134 359 912 Antisense
ATTTCTTCAACCATCCCAGATAATG 458 15 922 Antisense
TAATGGTACAAATATCCCTGCTGCC 137 635 942 Antisense
TATCCCTGCTGCCAAAAGGCGCGTT 557 657 954 Antisense
CAAAAGGCGCGTTCTTCGCGGATCT 83 191 966 Antisense
Sequence Source Affymetrix Proprietary Database