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[182603_at]

Description F53A3.4 /REP_DB=WormBase Gene ID /WP=CE28443 /TR=Q9TXQ5 /GB=AAF02169.2 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 17      4grp_highest_8_8 > 39      4grp_high_8_8 > 20      6grp_highest_nonorm > 70      6grp_total > 17      4grp_total > 20      6grp_highest_sub > De      6grp_cgc > 11      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 363
1 2 3 4 range
A 438.3
(-1.8)
P 		480.4
(-0.9)
P 		381.9
(-3)
P 		668.7
(3)
P 		287
B 462.2
(0.5)
P 		365.3
(-1.7)
P 		305.6
(-3)
P 		576.6
(3)
P 		271
C 434.1
(0.7)
P 		428
(0.5)
P 		323.1
(-3)
P 		500.9
(3)
P 		178
avr 444.9
(-0.4) 		424.6
(-0.9) 		336.9
(-3) 		582.1
(3) 		245

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 449
1 2 3 4 5 6 range
A 390.6
(3)
P 		342.5
(1.5)
P 		206.3
(-2.6)
P 		239
(-1.6)
P 		193.7
(-3)
P 		344.5
(1.6)
P 		197
B 393.1
(3)
P 		270
(-0.4)
P 		263.2
(-0.6)
P 		208.1
(-2.2)
P 		177.8
(-3)
P 		211.9
(-2)
P 		215
C 625.2
(3)
P 		309.4
(-1.2)
P 		297.1
(-1.4)
P 		194.8
(-2.8)
P 		292.9
(-1.4)
P 		176.6
(-3)
P 		449
avr 469.6
(3) 		307.3
(-0.8) 		255.5
(-2) 		214
(-3) 		221.5
(-2.8) 		244.3
(-2.3) 		256
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 159.6
(3)
P 		104.3
(-2.4)
P 		99.8
(-2.8)
P 		97.9
(-3)
P 		62
B 147.4
(3)
P 		90.2
(-1.5)
P 		70.8
(-3)
P 		122.9
(1.1)
P 		77
C 143.7
(3)
P 		123
(0.9)
P 		112.6
(-0.2)
P 		84.5
(-3)
P 		59
avr 150.2
(3) 		105.8
(-1.8) 		94.4
(-3) 		101.8
(-2.2) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 193
1 2 3 4 5 6 range
A 72
(-0.9)
P 		121.8
(3)
P 		44.9
(-3)
P 		60.6
(-1.8)
P 		58.5
(-1.9)
P 		83.9
(0)
P 		77
B 136.8
(3)
P 		89.9
(-0.4)
P 		63.9
(-2.4)
P 		55.1
(-3)
P 		72.2
(-1.7)
P 		79
(-1.2)
P 		82
C 231.7
(3)
P 		94.4
(-1.3)
P 		75.6
(-1.9)
P 		39.2
(-3)
P 		94.8
(-1.3)
P 		59.1
(-2.4)
P 		193
avr 146.8
(3) 		102
(0.2) 		61.5
(-2.4) 		51.6
(-3) 		75.2
(-1.5) 		74
(-1.6) 		95
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182603_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8174
Sequence Type Exemplar sequence
Representative Public ID F53A3.4 NCBI
Target Description F53A3.4 /REP_DB=WormBase Gene ID /WP=CE28443 /TR=Q9TXQ5 /GB=AAF02169.2 /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_065077(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065077 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) (pqn-41) mRNA, complete cds. 11/11 None
GENEFINDER00000027594 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1924821:1939319:1 11/11 None
SNAP00000027588 ENSEMBL cdna:SNAP chromosome:CEL140:III:1925730:1939319:1 11/11 None
F53A3.4 ENSEMBL cdna:known chromosome:CEL140:III:1931972:1939557:1 gene:F53A3.4 11/11 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
chrIII:1934047-1939319(+) 84.4 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-41
Ensembl F53A3.4
Entrez Gene 175335 Entrez gene
SwissProt Q9TXQ5 EMBL-EBI
WormBase CE28443 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70991 Hypothetical protein F53A3.6 [Caenorhabditis elegans] ref|NP_497477.2| F53A3.6 [Caenorhabditis elegans] 1.0E-47
blast AAF02169 Prion-like-(q/n-rich)-domain-bearing protein protein 41 [Caenorhabditis elegans] ref|NP_497478.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) [Caenorhabditis elegans] 1.0E-29
blast AAF02169 Prion-like-(q/n-rich)-domain-bearing protein protein 41 [Caenorhabditis elegans] ref|NP_497478.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) [Caenorhabditis elegans] 1.0E-24
blast CAE66469 Hypothetical protein CBG11746 [Caenorhabditis briggsae] 8.0E-17
blast CAE66469 Hypothetical protein CBG11746 [Caenorhabditis briggsae] 2.0E-16
blast AAF02169 Prion-like-(q/n-rich)-domain-bearing protein protein 41 [Caenorhabditis elegans] ref|NP_497478.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) [Caenorhabditis elegans] 6.0E-9
Sequence
Target Sequence 
>C. ELEGANS:182603_AT
gcaacagcaacaactagacctgataagacaaatggaggcagtggctcaggtacagcaggc
acatgctcaggcacaggcgcaggcacaggcacaggcacaacaaatgcagcaacaacagat
tcaacaaatgcttatggcaggccaaggcggaccgaatggccaagatcttattcgtctgct
tcaggcggctcagcaacagtcacaggctcaacagcagcagcagcagcaacaggccgtggt
ggcggcggctcaacagcaacaacagcagcaacaacataaccaacaactcgcagccgccca
agcagccgccgcagctgcagcagccggccgtccaactcaaaatcaatacgaagcactgct
ccagcaacaacgactgctcgccgctcaacaacaagccgccgccggcgccagtgctcagca
acaggccgccgcagcagccgcccaggctcaagctcaacaattccagcagcaactgctcgg
tctacagccaaatttgctcctggccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAACAGCAACAACTAGACCTGATA 412 319 732 Antisense
AGGCAGTGGCTCAGGTACAGCAGGC 685 53 767 Antisense
GTACAGCAGGCACATGCTCAGGCAC 5 461 781 Antisense
TTATGGCAGGCCAAGGCGGACCGAA 704 679 863 Antisense
GCGGACCGAATGGCCAAGATCTTAT 321 293 878 Antisense
CAAGATCTTATTCGTCTGCTTCAGG 308 185 892 Antisense
AACAACATAACCAACAACTCGCAGC 567 133 1001 Antisense
CGGCCGTCCAACTCAAAATCAATAC 270 239 1056 Antisense
TACGAAGCACTGCTCCAGCAACAAC 359 649 1078 Antisense
CAACTGCTCGGTCTACAGCCAAATT 437 187 1201 Antisense
TACAGCCAAATTTGCTCCTGGCCCA 709 643 1214 Antisense
Sequence Source Affymetrix Proprietary Database