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[178666_at]

Description T23F1.6 /REP_DB=WormBase Gene ID /WP=CE14080 /TR=O18118 /GB=CAB03405.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      6grp_highest_nonorm > 40      6grp_total > 16      4grp_total > 50      6grp_highest_sub > De      6grp_cgc > 12      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1272
1 2 3 4 range
A 10.1
(-3)
A 		1118
(3)
P 		558.8
(-0)
P 		12.4
(-3)
A 		1108
B 11.3
(-3)
A 		1279.5
(3)
P 		797.7
(0.7)
P 		82
(-2.7)
A 		1268
C 17.7
(-2.9)
A 		1143.6
(3)
P 		674.8
(0.5)
P 		7.2
(-3)
A 		1136
avr 13
(-3) 		1180.4
(3) 		677.1
(0.4) 		33.9
(-2.9) 		1167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1177
1 2 3 4 5 6 range
A 1370
(3)
P 		794
(0.1)
P 		193.3
(-3)
P 		350.1
(-2.2)
P 		417.9
(-1.9)
P 		261.6
(-2.7)
P 		1177
B 1042.8
(3)
P 		713.7
(0.5)
P 		322.2
(-2.5)
P 		288.9
(-2.7)
P 		449.9
(-1.5)
P 		255.6
(-3)
P 		787
C 1122.9
(3)
P 		552.7
(-1)
P 		330.4
(-2.5)
P 		339
(-2.5)
P 		556.9
(-0.9)
P 		260.6
(-3)
P 		862
avr 1178.6
(3) 		686.8
(-0.2) 		282
(-2.9) 		326
(-2.6) 		474.9
(-1.6) 		259.3
(-3) 		919
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 328
1 2 3 4 range
A 3.7
(-3)
A 		242.7
(3)
P 		146.1
(0.6)
P 		1.8
(-3)
A 		241
B 3.6
(-3)
A 		316
(3)
P 		184.8
(0.5)
P 		17.5
(-2.7)
A 		312
C 5.9
(-2.9)
A 		328.8
(3)
P 		235.2
(1.3)
P 		1.2
(-3)
A 		328
avr 4.4
(-3) 		295.8
(3) 		188.7
(0.8) 		6.8
(-3) 		291

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 374
1 2 3 4 5 6 range
A 252.5
(2.3)
P 		282.4
(3)
P 		42.1
(-3)
P 		88.8
(-1.8)
P 		126.1
(-0.9)
P 		63.7
(-2.5)
P 		240
B 362.8
(3)
P 		237.6
(0.4)
P 		78.2
(-3)
P 		76.5
(-3)
P 		182.8
(-0.8)
P 		95.3
(-2.6)
P 		286
C 416.2
(3)
P 		168.7
(-1.3)
P 		84.1
(-2.7)
P 		68.2
(-3)
P 		180.2
(-1.1)
P 		87.2
(-2.7)
P 		348
avr 343.8
(3) 		229.6
(0.5) 		68.1
(-3) 		77.8
(-2.8) 		163
(-0.9) 		82.1
(-2.7) 		276
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178666_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13647
Sequence Type Exemplar sequence
Representative Public ID T23F1.6 NCBI
Target Description T23F1.6 /REP_DB=WormBase Gene ID /WP=CE14080 /TR=O18118 /GB=CAB03405.1 /SUBMIT=HINXTON /CHR=5 /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_074448(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074448 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-71) (pqn-71) mRNA, complete cds. 11/11 None
SNAP00000033150 ENSEMBL cdna:SNAP chromosome:CEL140:V:15468286:15469623:1 11/11 None
GENEFINDER00000033152 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15468286:15471422:1 11/11 None
T23F1.6 ENSEMBL cdna:known chromosome:CEL140:V:15468262:15469659:1 gene:T23F1.6 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
chrV:15468285-15469623(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-71
Ensembl T23F1.6
Entrez Gene 188802 Entrez gene
SwissProt O18118 EMBL-EBI
WormBase CE14080 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03405 Hypothetical protein T23F1.6 [Caenorhabditis elegans] ref|NP_506849.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-71) [Caenorhabditis elegans] 8.0E-26
blast CAB03405 Hypothetical protein T23F1.6 [Caenorhabditis elegans] ref|NP_506849.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-71) [Caenorhabditis elegans] 5.0E-23
blast CAE56834 Hypothetical protein CBG24659 [Caenorhabditis briggsae] 9.0E-15
blast CAE56834 Hypothetical protein CBG24659 [Caenorhabditis briggsae] 5.0E-12
blast CAA94868 Hypothetical protein AC3.4 [Caenorhabditis elegans] ref|NP_505668.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-2) [Caenorhabditis elegans] 3.0E-11
Protein Domains
Database ID Description E-Value
Pfam IPR009475 EMBL-EBI Protein of unknown function DUF1096 2.4E-33
Sequence
Target Sequence 
>C. ELEGANS:178666_AT
gtgtgagaaccgatgcatgcagcagtgtactcaacagcagaccgcgcaacagtgccagcc
aatttgtcagcagcagtgccagcaggaatgtgggtccacaggaaatatgatgtacaataa
tcaggatccgtataatcaaatgcagtatggagggtacaatcagcaaggaaatcagtacca
gaaccaaaatcagtaccaaaatccaaaccagatccaaaatcagtacaaccagaaccagta
ccaaaaccaaaactactacaacccttaccaacaaactcaatgccaacaacaatgtgctcc
acaatgctctcaacaaacttccaccaactgccagcagtgtcagaactcctgccagaacag
caacactcaaaccataaccatctacgtgcaagcctccccacagacctcccaatgtgttcc
ccagtgccagcaacaatgccaacagcagtgccaaactagaaccacggcctcccaacagtg
tgctccagcttgctcgacatcctgcaatcaatcctgtaatcagccggcccaaatggcatg
tcaaccaatgcaaaatagtcagtgcggatgtcaacaaaactattcgccgtgcgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTGAGAACCGATGCATGCAGCAG 290 487 378 Antisense
AGCAGTGTACTCAACAGCAGACCGC 41 79 398 Antisense
GCAACAGTGCCAGCCAATTTGTCAG 450 319 423 Antisense
CAACCCTTACCAACAAACTCAATGC 515 187 636 Antisense
CACAATGCTCTCAACAAACTTCCAC 247 195 677 Antisense
GTCAGAACTCCTGCCAGAACAGCAA 514 465 716 Antisense
ACCATAACCATCTACGTGCAAGCCT 131 87 748 Antisense
AGTGCCAAACTAGAACCACGGCCTC 489 51 824 Antisense
TCGACATCCTGCAATCAATCCTGTA 441 601 871 Antisense
ATCAGCCGGCCCAAATGGCATGTCA 255 27 896 Antisense
GTCAACAAAACTATTCGCCGTGCGG 266 461 947 Antisense
Sequence Source Affymetrix Proprietary Database