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[177902_s_at]

Description F48F7.4 /REP_DB=WormBase Gene ID /WP=CE05891 /TR=Q20576 /GB=CAA93494.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 61      6grp_total > 24      4grp_total > 31      6grp_highest_sub > De      6grp_cgc > 33      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.
4 355
1 2 3 4 range
A 574
(3)
P 		409.6
(-0.5)
P 		290.8
(-3)
P 		376.7
(-1.2)
P 		283
B 539.6
(3)
P 		286.3
(-2.8)
P 		276.6
(-3)
P 		420.4
(0.3)
P 		263
C 535.8
(3)
P 		218.8
(-3)
P 		273.2
(-2)
P 		480.6
(2)
P 		317
avr 549.8
(3) 		304.9
(-2.5) 		280.2
(-3) 		425.9
(0.2) 		270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 257
1 2 3 4 5 6 range
A 436.3
(2.1)
P 		455
(3)
P 		385
(-0.3)
P 		328.8
(-3)
P 		363.8
(-1.3)
P 		368.2
(-1.1)
P 		126
B 577.3
(3)
P 		455.8
(0.1)
P 		468
(0.4)
P 		432.7
(-0.4)
P 		325.4
(-3)
P 		383.9
(-1.6)
P 		252
C 462.8
(1.7)
P 		490.9
(2.6)
P 		502.8
(3)
P 		325.5
(-2.8)
P 		409.7
(-0.1)
P 		320.6
(-3)
P 		182
avr 492.1
(3) 		467.2
(1.9) 		451.9
(1.2) 		362.3
(-2.8) 		366.3
(-2.6) 		357.6
(-3) 		135
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 154
1 2 3 4 range
A 209
(3)
P 		88.9
(-1.7)
P 		76
(-2.2)
P 		55.1
(-3)
P 		154
B 172.1
(3)
P 		70.7
(-2.6)
P 		64.1
(-3)
P 		89.6
(-1.6)
P 		108
C 177.4
(3)
P 		62.9
(-3)
P 		95.2
(-1.3)
P 		81
(-2.1)
P 		115
avr 186.2
(3) 		74.2
(-3) 		78.4
(-2.8) 		75.2
(-2.9) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 80.4
(-3)
P 		161.8
(3)
P 		83.8
(-2.7)
P 		83.4
(-2.8)
P 		109.8
(-0.8)
P 		89.7
(-2.3)
P 		81
B 200.9
(3)
P 		151.7
(-0.4)
P 		113.6
(-3)
P 		114.6
(-2.9)
P 		132.2
(-1.7)
P 		143.1
(-1)
P 		87
C 171.6
(3)
P 		149.8
(1.8)
P 		128
(0.5)
P 		65.5
(-3)
P 		132.6
(0.8)
P 		107.3
(-0.6)
P 		106
avr 151
(2.7) 		154.4
(3) 		108.5
(-1.1) 		87.8
(-3) 		124.9
(0.3) 		113.4
(-0.7) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177902_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17945
Sequence Type Exemplar sequence
Representative Public ID F48F7.4 NCBI
Target Description F48F7.4 /REP_DB=WormBase Gene ID /WP=CE05891 /TR=Q20576 /GB=CAA93494.1 /SUBMIT=HINXTON /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_077924(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077924 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-39) (pqn-39) mRNA, complete cds. 11/11 None
SNAP00000000614 ENSEMBL cdna:SNAP chromosome:CEL140:X:13965737:13968550:-1 11/11 None
GENEFINDER00000000623 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13965737:13968550:-1 11/11 None
F48F7.4 ENSEMBL cdna:known chromosome:CEL140:X:13965657:13969488:-1 gene:F48F7.4 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
chrX:13965736-13969488(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-39
Ensembl F48F7.4
Entrez Gene 181506 Entrez gene
SwissProt Q20576 EMBL-EBI
WormBase CE05891 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA93494 Hypothetical protein F48F7.4 [Caenorhabditis elegans] ref|NP_510325.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-39) [Caenorhabditis elegans] 0.0
blast CAE63059 Hypothetical protein CBG07337 [Caenorhabditis briggsae] 1.0E-107
blast CAE63059 Hypothetical protein CBG07337 [Caenorhabditis briggsae] 1.0E-106
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510325.1 1 13-35
F48F7.4 1 13-35
Sequence
Target Sequence 
>C. ELEGANS:177902_S_AT
aatgggccctcagatggttgcaacaatgaacgcgtttcaaaatgctaatataggaacttt
gccaccaggtgttcaacgaataccattattacctggaccatttggaatgccacgtcaagt
tcatcaggatatcaagttccagaacacgtggctggatgccacaagttgcccattgccgct
ggcggccgtgatgagtattgataccagattcggaagaggtggcatgcgtggtagaggccg
tggagttaattacacgtaccgcggagcttaccgaggtgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGGGCCCTCAGATGGTTGCAACA 466 163 2163 Antisense
ATATAGGAACTTTGCCACCAGGTGT 11 19 2210 Antisense
GCCACCAGGTGTTCAACGAATACCA 200 279 2223 Antisense
GAATACCATTATTACCTGGACCATT 83 327 2240 Antisense
GGACCATTTGGAATGCCACGTCAAG 525 521 2257 Antisense
GTGGCTGGATGCCACAAGTTGCCCA 150 493 2310 Antisense
TTGCCGCTGGCGGCCGTGATGAGTA 224 703 2335 Antisense
ATTCGGAAGAGGTGGCATGCGTGGT 60 3 2370 Antisense
GCATGCGTGGTAGAGGCCGTGGAGT 653 295 2384 Antisense
TGGAGTTAATTACACGTACCGCGGA 163 287 2403 Antisense
GTACCGCGGAGCTTACCGAGGTGGA 601 457 2418 Antisense
Sequence Source Affymetrix Proprietary Database