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[177704_at]

Description F56F3.1 /REP_DB=WormBase Gene ID /WP=CE17911 /TR=Q20898 /GB=CAA83608.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 67      4grp_total > 18      6grp_cgc > 28      6grp_cgc_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 58.2
(-3)
P 		97.6
(2)
A 		84.9
(0.4)
M 		105.2
(3)
A 		47
B 47.8
(-3)
A 		66.5
(-1.1)
P 		73.9
(-0.4)
A 		106.9
(3)
P 		59
C 97.9
(2.2)
P 		83.6
(0.7)
A 		49.9
(-3)
A 		105.2
(3)
A 		55
avr 68
(-3) 		82.6
(-0.7) 		69.6
(-2.7) 		105.8
(3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 50.5
(-0.8)
A 		38.7
(-1.5)
A 		72.8
(0.5)
A 		13.5
(-3)
A 		42.6
(-1.3)
A 		115.2
(3)
P 		102
B 59.9
(-1.2)
P 		78.8
(-0.2)
A 		47
(-1.9)
A 		25.7
(-3)
A 		25.3
(-3)
A 		139.8
(3)
P 		115
C 82.8
(0.6)
P 		41.4
(-2)
A 		56.5
(-1.1)
A 		25.7
(-3)
A 		59
(-0.9)
A 		121.4
(3)
P 		96
avr 64.4
(-0.5) 		53
(-1.2) 		58.8
(-0.9) 		21.6
(-3) 		42.3
(-1.8) 		125.5
(3) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 21.2
(2.1)
P 		21.2
(2.1)
A 		22.2
(3)
M 		15.4
(-3)
A 		7
B 15.2
(-3)
A 		16.4
(-2.1)
P 		17.1
(-1.5)
A 		22.8
(3)
P 		8
C 32.4
(3)
P 		24
(-0.4)
A 		17.4
(-3)
A 		17.7
(-2.9)
A 		15
avr 22.9
(3) 		20.5
(-0.3) 		18.9
(-2.6) 		18.6
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 9.3
(-1.6)
A 		13.7
(-0.5)
A 		15.9
(0)
A 		3.4
(-3)
A 		12.9
(-0.7)
A 		28
(3)
P 		25
B 20.8
(-1.1)
P 		26.2
(-0.4)
A 		11.4
(-2.4)
A 		6.8
(-3)
A 		10.3
(-2.5)
A 		52.1
(3)
P 		45
C 30.7
(1.3)
P 		12.6
(-1.7)
A 		14.4
(-1.4)
A 		5.2
(-3)
A 		19.1
(-0.7)
A 		40.7
(3)
P 		36
avr 20.3
(-0.4) 		17.5
(-0.9) 		13.9
(-1.5) 		5.1
(-3) 		14.1
(-1.5) 		40.3
(3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177704_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7231
Sequence Type Exemplar sequence
Representative Public ID F56F3.1 NCBI
Target Description F56F3.1 /REP_DB=WormBase Gene ID /WP=CE17911 /TR=Q20898 /GB=CAA83608.1 /SUBMIT=HINXTON /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_065508(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065508 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-45) (pqn-45) mRNA, complete cds. 11/11 None
SNAP00000037231 ENSEMBL cdna:SNAP chromosome:CEL140:III:4472401:4475109:-1 11/11 None
GENEFINDER00000037235 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4472401:4475109:-1 11/11 None
F56F3.1 ENSEMBL cdna:known chromosome:CEL140:III:4471376:4475109:-1 gene:F56F3.1 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
chrIII:4472400-4475109(-) 97.55 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-45
Ensembl F56F3.1
Entrez Gene 175583 Entrez gene
SwissProt Q20898 EMBL-EBI
WormBase CE17911 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA83608 Hypothetical protein F56F3.1 [Caenorhabditis elegans] ref|NP_497909.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-45) [Caenorhabditis elegans] 0.0
blast CAE71198 Hypothetical protein CBG18057 [Caenorhabditis briggsae] 0.0
blast AAH90823 Hypothetical protein LOC541411 [Danio rerio] ref|NP_001013556.1| hypothetical protein LOC541411 [Danio rerio] 6.0E-9
Sequence
Target Sequence 
>C. ELEGANS:177704_AT
atacctgcgtctgtgcagcggcaattgcagaagagctcctcaaatgctgatcagaagaaa
gaaaagacgagtcagagcccgccagagagcaaccaagagacttccgacgctcataatcaa
tctgatgccatgaaccaactgaagaaattgcacatgcagcagaactatgccaatatggtg
caggcaatgaattctggagtcggatgggcacgcggaaacggcgttgttaacggacaacag
caacatccacagcagcaacttccaccaaatgttcaaatgctgatggctcaacaccagcaa
gctcaaatgcagcacctcaagatgatgatgtcccgtgctcaacaacagcacatgttgatg
gcaaagatagctcaaatgcaacaacagcaagcccagatggctaacatgcaagagagacag
ggacccagtcataatcagcaacaacaccaacctgtggttccatccgagctgtcacaggtc
gggccaattcaaactccgcttgagaagctgctggcatcggttggagttcagggatctcaa
ttcactgggtccggagatcgaattccatcgtcggtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATACCTGCGTCTGTGCAGCGGCAAT 410 23 1669 Antisense
GACTTCCGACGCTCATAATCAATCT 579 371 1767 Antisense
TGGAGTCGGATGGGCACGCGGAAAC 13 549 1863 Antisense
ACAGCAGCAACTTCCACCAAATGTT 403 109 1917 Antisense
TGATGTCCCGTGCTCAACAACAGCA 294 567 1994 Antisense
GCAACAACACCAACCTGTGGTTCCA 242 319 2106 Antisense
CCATCCGAGCTGTCACAGGTCGGGC 699 271 2128 Antisense
CAGGTCGGGCCAATTCAAACTCCGC 459 207 2143 Antisense
GAAGCTGCTGGCATCGGTTGGAGTT 145 343 2172 Antisense
CAGGGATCTCAATTCACTGGGTCCG 238 209 2197 Antisense
GGAGATCGAATTCCATCGTCGGTCC 302 517 2221 Antisense
Sequence Source Affymetrix Proprietary Database