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[178345_at]

Description F39D8.2 /REP_DB=WormBase Gene ID /WP=CE17813 /TR=Q20188 /GB=CAA93659.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 80      4grp_highest_8_8 > 04      4grp_high_8_8 > 29      6grp_total > 82      4grp_total > 34      6grp_cgc > 74      6grp_high1_sub > 02_03_04_05      6grp_cgc_sub > 02_03_04_05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 167
1 2 3 4 range
A 131.1
(-3)
P 		207.1
(3)
P 		187.5
(1.5)
P 		177.4
(0.7)
P 		76
B 120.5
(-2.4)
P 		271.5
(3)
P 		104.2
(-3)
P 		252.1
(2.3)
P 		167
C 165.1
(-2.7)
P 		235.3
(3)
P 		161.9
(-3)
P 		209.9
(0.9)
P 		73
avr 138.9
(-3) 		238
(3) 		151.2
(-2.3) 		213.1
(1.5) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 115.1
(0.9)
P 		121
(1.3)
P 		129.7
(2)
P 		142.1
(3)
P 		137.6
(2.6)
P 		66
(-3)
A 		76
B 104.9
(-2.9)
P 		163.3
(3)
P 		135.6
(0.2)
P 		140.8
(0.7)
P 		149.1
(1.6)
P 		103.6
(-3)
P 		60
C 69.8
(-3)
P 		174.9
(3)
P 		128
(0.3)
P 		127.5
(0.3)
P 		163.8
(2.4)
P 		75.5
(-2.7)
P 		105
avr 96.6
(-1.7) 		153.1
(3) 		131.1
(1.2) 		136.8
(1.6) 		150.2
(2.8) 		81.7
(-3) 		71
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 47.7
(2.7)
P 		44.9
(1.9)
P 		49
(3)
P 		26
(-3)
P 		23
B 38.4
(-1)
P 		67.1
(3)
P 		24.2
(-3)
P 		53.7
(1.1)
P 		43
C 54.7
(0.6)
P 		67.6
(3)
P 		56.4
(0.9)
P 		35.4
(-3)
P 		32
avr 46.9
(-0.6) 		59.9
(3) 		43.2
(-1.7) 		38.4
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 21.2
(-1.9)
P 		43
(3)
P 		28.3
(-0.3)
P 		36
(1.4)
P 		41.5
(2.7)
P 		16.1
(-3)
A 		27
B 36.5
(-2.2)
P 		54.3
(1.6)
P 		32.9
(-3)
P 		37.3
(-2)
P 		60.6
(3)
P 		38.6
(-1.8)
P 		28
C 25.9
(-2.9)
P 		53.4
(3)
P 		32.6
(-1.4)
P 		25.6
(-2.9)
P 		53
(2.9)
P 		25.3
(-3)
P 		28
avr 27.9
(-2.7) 		50.2
(2.6) 		31.3
(-1.9) 		33
(-1.5) 		51.7
(3) 		26.7
(-3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178345_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17675
Sequence Type Exemplar sequence
Representative Public ID F39D8.2 NCBI
Target Description F39D8.2 /REP_DB=WormBase Gene ID /WP=CE17813 /TR=Q20188 /GB=CAA93659.1 /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_078143(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078143 NCBI Caenorhabditis elegans F39D8.2 (F39D8.2) mRNA, complete cds. 11/11 None
GENEFINDER00000018949 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15415474:15418967:1 9/11 None
F39D8.2 ENSEMBL cdna:known chromosome:CEL140:X:15408892:15418967:1 gene:F39D8.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000018943 1/11 Cross Hyb Matching Probes None
SNAP00000018945 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:15408971-15418875(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol psa-3
Ensembl F39D8.2
Entrez Gene 181631 Entrez gene
SwissProt Q20188 EMBL-EBI
WormBase CE34185 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA93659 Hypothetical protein F39D8.2 [Caenorhabditis elegans] ref|NP_510544.2| F39D8.2 [Caenorhabditis elegans] 4.0E-95
blast AAZ23152 hox cofactor PSA-3 splice variant beta [Caenorhabditis elegans] 4.0E-95
blast CAA93659 Hypothetical protein F39D8.2 [Caenorhabditis elegans] ref|NP_510544.2| F39D8.2 [Caenorhabditis elegans] 1.0E-77
blast AAZ23152 hox cofactor PSA-3 splice variant beta [Caenorhabditis elegans] 1.0E-77
blast CAE63305 Hypothetical protein CBG07694 [Caenorhabditis briggsae] 3.0E-54
blast CAE63305 Hypothetical protein CBG07694 [Caenorhabditis briggsae] 7.0E-40
Sequence
Target Sequence 
>C. ELEGANS:178345_AT
atgccgattgtcgaactattgctcgaaaaatgtgaaactgcagcaacaacatttgatagg
aaggcgttcgaaacagatgacattaagcggttgttccaatcactcgagcagcgtggagtt
caattgagttcgaatagagatgaagtcgatgagctgatggagacggcgattttggcgttg
aggacatgtatggtggagttggaaagggtgtattcattgatggaaagttttaaggcaaag
tatctagcaacactacgccggacagtgtgtcacgaagcactagtaggaaataatggtgat
agcgatgatgaactttctgataatccattgatgccagttcttgaaatgtctgaagctgca
tttcaagcacaaaacaaagcaatggaatcagcacttgccacgttgcaatcagttagtggg
tcgttatcattacccctacagtttactcatcaatcaataactgccgctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCGATTGTCGAACTATTGCTCG 516 41 13 Antisense
TAAGCGGTTGTTCCAATCACTCGAG 97 639 96 Antisense
GAGCAGCGTGGAGTTCAATTGAGTT 548 389 118 Antisense
GGAGACGGCGATTTTGGCGTTGAGG 146 517 171 Antisense
AAAGTATCTAGCAACACTACGCCGG 647 121 249 Antisense
ACTACGCCGGACAGTGTGTCACGAA 444 99 264 Antisense
GATAATCCATTGATGCCAGTTCTTG 228 423 331 Antisense
CAATGGAATCAGCACTTGCCACGTT 362 183 392 Antisense
GTGGGTCGTTATCATTACCCCTACA 345 435 428 Antisense
TACCCCTACAGTTTACTCATCAATC 624 649 443 Antisense
CTCATCAATCAATAACTGCCGCTCA 537 227 458 Antisense
Sequence Source Affymetrix Proprietary Database