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[175887_s_at]

Description F54A3.6 /REP_DB=WormBase Gene ID /WP=CE25902 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 91      6grp_total > 78      4grp_total > 07      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 360.2
(3)
P 		266.2
(-3)
P 		266.2
(-3)
P 		308.9
(-0.3)
P 		94
B 334.9
(3)
P 		182.8
(-3)
P 		255.3
(-0.1)
P 		321.6
(2.5)
P 		152
C 370.2
(1.5)
P 		252.1
(-3)
P 		410.4
(3)
P 		310.1
(-0.8)
P 		158
avr 355.1
(3) 		233.7
(-3) 		310.6
(0.8) 		313.5
(0.9) 		121

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 366
1 2 3 4 5 6 range
A 233.7
(-2)
P 		232.8
(-2)
P 		177.7
(-3)
P 		190.3
(-2.8)
P 		211.1
(-2.4)
P 		521.4
(3)
P 		344
B 155.6
(-3)
P 		227.7
(-0)
P 		258.7
(1.3)
P 		184.1
(-1.8)
P 		258.4
(1.2)
P 		301.1
(3)
P 		146
C 277.2
(2.8)
P 		219.3
(-3)
P 		240.9
(-0.8)
P 		273.9
(2.5)
P 		278.7
(3)
P 		243.1
(-0.6)
P 		59
avr 222.2
(-2.7) 		226.6
(-2.5) 		225.8
(-2.6) 		216.1
(-3) 		249.4
(-1.6) 		355.2
(3) 		139
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 131.1
(3)
P 		57.8
(-2.1)
P 		69.6
(-1.3)
P 		45.2
(-3)
P 		86
B 106.8
(3)
P 		45.1
(-3)
P 		59.2
(-1.6)
P 		68.5
(-0.7)
P 		62
C 122.6
(1.7)
P 		72.5
(-1.7)
P 		143
(3)
P 		52.3
(-3)
P 		91
avr 120.2
(3) 		58.5
(-2.7) 		90.6
(0.3) 		55.3
(-3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 43.1
(-2.7)
P 		82.8
(-0)
P 		38.7
(-3)
P 		48.3
(-2.3)
P 		63.7
(-1.3)
P 		127
(3)
P 		88
B 54.1
(-2.5)
P 		75.8
(-0.4)
P 		62.8
(-1.7)
P 		48.8
(-3)
P 		105
(2.3)
P 		112.3
(3)
P 		64
C 102.7
(3)
P 		66.9
(-1.5)
P 		61.3
(-2.2)
P 		55.1
(-3)
P 		90.2
(1.4)
P 		81.4
(0.3)
P 		48
avr 66.6
(-1.3) 		75.2
(-0.4) 		54.3
(-2.6) 		50.7
(-3) 		86.3
(0.8) 		106.9
(3) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175887_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4415
Sequence Type Exemplar sequence
Representative Public ID F54A3.6 NCBI
Target Description F54A3.6 /REP_DB=WormBase Gene ID /WP=CE25902 /SUBMIT=ST.LOUIS /CHR=2 /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_061816(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061816 NCBI Caenorhabditis elegans F54A3.6 (F54A3.6) mRNA, complete cds. 11/11 A 
SNAP00000020155 ENSEMBL cdna:SNAP chromosome:CEL140:II:2224486:2255433:-1 11/11 None
GENEFINDER00000020157 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2225906:2232332:-1 11/11 None
F54A3.6 ENSEMBL cdna:known chromosome:CEL140:II:2225838:2232471:-1 gene:F54A3.6 11/11 A 
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
chrII:2225904-2232331(-) 98.3 100.0
Public Domain and Genome References
Gene Title
Ensembl F54A3.6
Entrez Gene 173580 Entrez gene
SwissProt Q9N4J9 EMBL-EBI
WormBase CE25902 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF35959 Hypothetical protein F54A3.6 [Caenorhabditis elegans] ref|NP_494217.1| F54A3.6 [Caenorhabditis elegans] 1.0E-158
blast AAF35959 Hypothetical protein F54A3.6 [Caenorhabditis elegans] ref|NP_494217.1| F54A3.6 [Caenorhabditis elegans] 1.0E-111
blast AAF35960 Hypothetical protein F54A3.5 [Caenorhabditis elegans] ref|NP_494216.1| F54A3.5 [Caenorhabditis elegans] sp|Q9N4K0|U327_CAEEL Hypothetical UPF0327 protein F54A3.5 2.0E-49
blast CAE70466 Hypothetical protein CBG17053 [Caenorhabditis briggsae] 9.0E-46
blast CAE70465 Hypothetical protein CBG17052 [Caenorhabditis briggsae] 3.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR007512 EMBL-EBI Protein of unknown function DUF543 2.7E-47
Sequence
Target Sequence 
>C. ELEGANS:175887_S_AT
atcagctcaatcatcaactggctcatcaactggcacatcttcttatcaaaataatattaa
aaaagcattaattcccggtaaaccaccaggacaaccgattatcagaagaaaaccagcttc
atggtatgaaatgtacaaaaaacaagtggattcattgaaagaacaggtttatggaaaacc
caatccaccaccaccatcagccggttatttcttccaagcaccacctccagcaccagcttc
ttcttcatctacagtaccccctgctgtgagcccatttggtgtcccacttggagcacaacc
atccaccacgtcatccaccacctacagtagtaactacagtaacccgtcgtatccgccgcc
gccaaaagttgatctaccaccaccgggaattgttcaactggacagagtcgtctatcctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCAGCTCAATCATCAACTGGCTCA 449 29 798 Antisense
AACTGGCTCATCAACTGGCACATCT 315 143 813 Antisense
GCATTAATTCCCGGTAAACCACCAG 648 305 862 Antisense
CCACCAGGACAACCGATTATCAGAA 505 273 880 Antisense
TTATGGAAAACCCAATCCACCACCA 100 665 966 Antisense
CATCAGCCGGTTATTTCTTCCAAGC 546 211 992 Antisense
TGGTGTCCCACTTGGAGCACAACCA 705 551 1074 Antisense
GTCATCCACCACCTACAGTAGTAAC 594 465 1107 Antisense
CCGCCGCCAAAAGTTGATCTACCAC 26 263 1153 Antisense
GATCTACCACCACCGGGAATTGTTC 223 419 1168 Antisense
AACTGGACAGAGTCGTCTATCCTCC 136 143 1193 Antisense
Sequence Source Affymetrix Proprietary Database