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[180624_s_at]

Description F52D1.3 /REP_DB=WormBase Gene ID /WP=CE28438 /TR=O17351 /GB=AAB71269.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 92      4grp_total > 57      6grp_cgc > 64      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 905
1 2 3 4 range
A 148.2
(-2.3)
A 		702.6
(2.3)
P 		788.4
(3)
P 		67.8
(-3)
A 		721
B 174.3
(-2.2)
A 		697.1
(1.3)
P 		952.8
(3)
P 		47.5
(-3)
A 		905
C 155.6
(-2.4)
A 		604.1
(2)
P 		700.7
(3)
P 		93
(-3)
A 		608
avr 159.4
(-2.3) 		667.9
(1.8) 		814
(3) 		69.4
(-3) 		745

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 456
1 2 3 4 5 6 range
A 179.8
(-3)
M 		606.3
(2.9)
P 		250.3
(-2)
P 		471.5
(1.1)
P 		610.4
(3)
P 		251.5
(-2)
P 		431
B 175.4
(-2.9)
A 		489.7
(2.2)
P 		233.3
(-1.9)
P 		542.1
(3)
P 		506.2
(2.4)
P 		167.4
(-3)
P 		375
C 160.8
(-3)
A 		495.2
(1.4)
P 		327.2
(-0.8)
P 		347.6
(-0.5)
P 		616.4
(3)
P 		162.2
(-3)
P 		456
avr 172
(-3) 		530.4
(2.3) 		270.3
(-1.5) 		453.7
(1.2) 		577.7
(3) 		193.7
(-2.7) 		406
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 234
1 2 3 4 range
A 53.9
(-1.7)
A 		152.5
(1.4)
P 		206.1
(3)
P 		9.9
(-3)
A 		196
B 55.6
(-1.7)
A 		172.2
(1.6)
P 		220.8
(3)
P 		10.1
(-3)
A 		211
C 51.5
(-2.1)
A 		173.7
(1.1)
P 		244.2
(3)
P 		15.7
(-3)
A 		229
avr 53.7
(-1.8) 		166.1
(1.4) 		223.7
(3) 		11.9
(-3) 		212

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 33.1
(-3)
M 		215.6
(3)
P 		54.5
(-2.3)
P 		119.6
(-0.2)
P 		184.2
(2)
P 		61.2
(-2.1)
P 		183
B 61
(-2.8)
A 		163
(1.3)
P 		56.7
(-3)
P 		143.6
(0.5)
P 		205.7
(3)
P 		62.4
(-2.8)
P 		149
C 59.6
(-2.8)
A 		151.1
(1)
P 		83.3
(-1.8)
P 		69.9
(-2.4)
P 		199.5
(3)
P 		54.3
(-3)
P 		145
avr 51.2
(-3) 		176.6
(2.2) 		64.8
(-2.4) 		111
(-0.5) 		196.5
(3) 		59.3
(-2.7) 		145
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180624_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18338
Sequence Type Exemplar sequence
Representative Public ID F52D1.3 NCBI
Target Description F52D1.3 /REP_DB=WormBase Gene ID /WP=CE28438 /TR=O17351 /GB=AAB71269.1 /SUBMIT=ST.LOUIS /CHR=X /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_075703(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075703 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-40) (pqn-40) mRNA, complete cds. 10/11 None
SNAP00000022775 ENSEMBL cdna:SNAP chromosome:CEL140:X:450651:453048:-1 9/11 None
GENEFINDER00000022787 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:450651:457418:-1 11/11 None
F52D1.3 ENSEMBL cdna:known chromosome:CEL140:X:450464:457545:-1 gene:F52D1.3 10/11 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
chrX:450650-457418(-) 97.63 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-40
Ensembl F52D1.3
Entrez Gene 180399 Entrez gene
SwissProt O17351 EMBL-EBI
WormBase CE37115 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB71269 Prion-like-(q/n-rich)-domain-bearing protein protein 40 [Caenorhabditis elegans] ref|NP_508104.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-40) [Caenorhabditis elegans] 1.0E-133
blast AAB71269 Prion-like-(q/n-rich)-domain-bearing protein protein 40 [Caenorhabditis elegans] ref|NP_508104.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-40) [Caenorhabditis elegans] 1.0E-125
blast CAE63661 Hypothetical protein CBG08163 [Caenorhabditis briggsae] 1.0E-106
blast CAE63661 Hypothetical protein CBG08163 [Caenorhabditis briggsae] 1.0E-102
blast AAB71269 Prion-like-(q/n-rich)-domain-bearing protein protein 40 [Caenorhabditis elegans] ref|NP_508104.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-40) [Caenorhabditis elegans] 5.0E-80
blast CAE63661 Hypothetical protein CBG08163 [Caenorhabditis briggsae] 2.0E-50
Sequence
Target Sequence 
>C. ELEGANS:180624_S_AT
aggaagtgtccaagccacaactgctcctcagaggcctgccaacggaaataccaatcaagt
tgttcattactatcaagacggcaaacaagttgtgcaacagattattccaagaagaatcgc
tgcaaatgggaatcttccactcaatggaccattcaactcacagtctgtcggtccgaccga
tccagcagagtatcagagaagacaacgagctttgcaccaagcttactctcagccacaaac
aaggggaactgttgcaactagatcagtggcaactggagcacagagcgtgtttccaaaaaa
tgcccgcttatcactttttttcagacaaagaaatgcccaacccgctgcccgtgtccagcc
tagaatatatgagtcaactgtaactgcaaccggtcaccatcaggcccatgccatccgtac
ttaccaagccaccaaatcagcaagtgtgaccccacccaacccacaaccatccgccgctac
aagaagttccggaagagtgagttcatcgaaaaaacggtacagtgggcatgtacttcctgg
tc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGAAGTGTCCAAGCCACAACTGCT 371 55 1809 Antisense
GAGGCCTGCCAACGGAAATACCAAT 8 403 1839 Antisense
TCAACTCACAGTCTGTCGGTCCGAC 375 629 1961 Antisense
TCCGACCGATCCAGCAGAGTATCAG 615 595 1980 Antisense
CAAGCTTACTCTCAGCCACAAACAA 364 185 2026 Antisense
CCAAAAAATGCCCGCTTATCACTTT 700 273 2101 Antisense
AGACAAAGAAATGCCCAACCCGCTG 532 71 2131 Antisense
GAGTCAACTGTAACTGCAACCGGTC 309 395 2179 Antisense
GTACTTACCAAGCCACCAAATCAGC 440 459 2225 Antisense
CATCCGCCGCTACAAGAAGTTCCGG 235 211 2276 Antisense
TACAGTGGGCATGTACTTCCTGGTC 453 643 2326 Antisense
Sequence Source Affymetrix Proprietary Database