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[177600_at]

Description F02E9.4 /REP_DB=WormBase Gene ID /WP=CE09187 /TR=O01319 /GB=CAB04052.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 56      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 83      6grp_total > 56      4grp_total > 31      6grp_highest_sub > Cu      6grp_cgc > 37      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 372
1 2 3 4 range
A 625.8
(3)
P 		302.6
(-3)
P 		356.9
(-2)
P 		422.4
(-0.8)
P 		323
B 577.3
(3)
P 		291.7
(-2.4)
P 		257.5
(-3)
P 		397.1
(-0.4)
P 		320
C 629.5
(3)
P 		313.1
(-3)
P 		328.3
(-2.7)
P 		492.2
(0.4)
P 		316
avr 610.9
(3) 		302.5
(-3) 		314.2
(-2.8) 		437.2
(-0.4) 		308

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 392
1 2 3 4 5 6 range
A 469.7
(-1.5)
P 		522.2
(-0.5)
P 		439.6
(-2)
P 		545
(-0.1)
P 		386.8
(-3)
P 		712.8
(3)
P 		326
B 614.7
(1.3)
P 		515
(-0.4)
P 		555.9
(0.3)
P 		361.8
(-3)
P 		424.7
(-1.9)
P 		715.4
(3)
P 		354
C 506.4
(-1.4)
P 		490.8
(-1.7)
P 		576.4
(-0.1)
P 		428.5
(-2.8)
P 		414.8
(-3)
P 		753.6
(3)
P 		339
avr 530.3
(-0.7) 		509.3
(-1.1) 		524
(-0.8) 		445.1
(-2.3) 		408.8
(-3) 		727.3
(3) 		319
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 227.9
(3)
P 		65.7
(-2.9)
P 		93.3
(-1.9)
P 		61.8
(-3)
P 		166
B 184.1
(3)
P 		72
(-2.4)
P 		59.7
(-3)
P 		84.6
(-1.8)
P 		124
C 208.4
(3)
P 		90
(-2.7)
P 		114.4
(-1.5)
P 		83
(-3)
P 		125
avr 206.8
(3) 		75.9
(-3) 		89.1
(-2.4) 		76.5
(-3) 		131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 181
1 2 3 4 5 6 range
A 86.6
(-3)
P 		185.7
(3)
P 		95.7
(-2.4)
P 		138.2
(0.1)
P 		116.7
(-1.2)
P 		173.5
(2.3)
P 		99
B 213.9
(1.1)
P 		171.4
(-0.3)
P 		135
(-1.6)
P 		95.8
(-3)
P 		172.6
(-0.3)
P 		266.8
(3)
P 		171
C 187.7
(0.7)
P 		149.8
(-0.7)
P 		146.7
(-0.8)
P 		86.2
(-3)
P 		134.2
(-1.3)
P 		252.3
(3)
P 		166
avr 162.7
(-0.3) 		169
(0) 		125.8
(-2.1) 		106.7
(-3) 		141.2
(-1.3) 		230.9
(3) 		124
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177600_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.356
Sequence Type Exemplar sequence
Representative Public ID F02E9.4 NCBI
Target Description F02E9.4 /REP_DB=WormBase Gene ID /WP=CE09187 /TR=O01319 /GB=CAB04052.1 /SUBMIT=HINXTON /CHR=1 /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_059883(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059883 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-28) (pqn-28) mRNA, complete cds. 11/11 None
SNAP00000012708 ENSEMBL cdna:SNAP chromosome:CEL140:I:8424957:8432990:1 11/11 None
GENEFINDER00000012715 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8424957:8432990:1 11/11 None
F02E9.4 ENSEMBL cdna:known chromosome:CEL140:I:8424957:8433167:1 gene:F02E9.4 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
chrI:8424887-8432921(+) 95.35 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-28
Ensembl F02E9.4
Entrez Gene 172628 Entrez gene
SwissProt O01319 EMBL-EBI
WormBase CE33046 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04052 Hypothetical protein F02E9.4 [Caenorhabditis elegans] ref|NP_492284.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-28) [Caenorhabditis elegans] 0.0
blast CAE67274 Hypothetical protein CBG12722 [Caenorhabditis briggsae] 0.0
blast AAH81027 Unknown (protein for MGC:81671) [Xenopus laevis] 1.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR003822 EMBL-EBI Paired amphipathic helix 3.2E-15
Pfam IPR003822 EMBL-EBI Paired amphipathic helix 3.2E-15
Sequence
Target Sequence 
>C. ELEGANS:177600_AT
gagagaatcctatcaaattgtatctgaaatatcgtctacaagaatatggacaaactgctg
aagaagtgctacgtggaaagaatacttatcgattcgaatttgttgaagagcaaaataaac
cgttcatcaaaatttgggttattcctagagaggagaaagacgatgatgacgatgatgatg
aagaaggaaatgaaggtggaaaagatgaagataatgtgaaagatgaagatgatggaggtg
atggagaaggaagagatggtcctgatgatgatcagcctccgccctcaaatgacgatggtg
atgacgaggaagacgaagacgatgaagaagatggaccttctggagcagacgaaccagaat
ctacgtcaggatcaggcaatgttccaatggatcatctgaatattggagaaaactttttat
ggtcgcctcctgaggaaaaagtgtgtaccggcaagatgacaacaaatgaaaaagaacaga
gaaacagtgttgactatatgaaggtgaccacgacacctcggctccgtattcataaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAGAATCCTATCAAATTGTATCT 387 395 3866 Antisense
AACTGCTGAAGAAGTGCTACGTGGA 429 141 3918 Antisense
GGTCCTGATGATGATCAGCCTCCGC 594 501 4123 Antisense
CTCCGCCCTCAAATGACGATGGTGA 562 233 4142 Antisense
TGGACCTTCTGGAGCAGACGAACCA 27 549 4197 Antisense
CGAACCAGAATCTACGTCAGGATCA 394 251 4215 Antisense
GTCAGGATCAGGCAATGTTCCAATG 63 467 4230 Antisense
TTTTTATGGTCGCCTCCTGAGGAAA 707 665 4279 Antisense
GTGTGTACCGGCAAGATGACAACAA 515 487 4306 Antisense
ATGAAGGTGACCACGACACCTCGGC 373 43 4363 Antisense
ACACCTCGGCTCCGTATTCATAAAA 450 109 4378 Antisense
Sequence Source Affymetrix Proprietary Database