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[176746_s_at]

Description R05D3.9 /REP_DB=WormBase Gene ID /WP=CE25071 /GB=AAK21444.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 10      4grp_highest_8_8 > 34      4grp_high_8_8 > 58      6grp_highest_nonorm > 32      6grp_total > 50      4grp_total > 61      6grp_highest_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 708
1 2 3 4 range
A 1148.5
(3)
P 		823.6
(0.2)
P 		1045.7
(2.1)
P 		440.6
(-3)
P 		708
B 1131.5
(3)
P 		823.3
(-0)
P 		958.6
(1.3)
P 		520.2
(-3)
P 		611
C 979.9
(2.5)
P 		806.4
(0.4)
P 		1026.1
(3)
P 		518
(-3)
P 		508
avr 1086.6
(3) 		817.8
(0.3) 		1010.1
(2.2) 		492.9
(-3) 		594

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 862
1 2 3 4 5 6 range
A 1291.3
(1.5)
P 		1130.6
(0.3)
P 		1499.4
(3)
P 		1441
(2.6)
P 		802.5
(-2.1)
P 		687.3
(-3)
P 		812
B 1192.7
(2.9)
P 		939.4
(0.1)
P 		877.8
(-0.6)
P 		1203.6
(3)
P 		847.5
(-0.9)
P 		660.9
(-3)
P 		543
C 1280.6
(1.3)
P 		916.5
(-1.2)
P 		1520.7
(3)
P 		1471.1
(2.7)
P 		721.5
(-2.6)
P 		658.9
(-3)
P 		862
avr 1254.9
(2) 		995.5
(-0.2) 		1299.3
(2.4) 		1371.9
(3) 		790.5
(-2) 		669
(-3) 		703
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 354
1 2 3 4 range
A 418.2
(3)
P 		178.8
(-1.1)
P 		273.4
(0.5)
P 		64.5
(-3)
P 		354
B 360.8
(3)
P 		203.3
(-0.8)
P 		222.1
(-0.3)
P 		110.8
(-3)
P 		250
C 324.4
(2.3)
P 		231.9
(0.2)
P 		357.6
(3)
P 		87.3
(-3)
P 		270
avr 367.8
(3) 		204.7
(-0.5) 		284.4
(1.2) 		87.5
(-3) 		280

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 307
1 2 3 4 5 6 range
A 238
(-1.2)
P 		402.1
(3)
P 		326.5
(1.1)
P 		365.5
(2.1)
P 		242.2
(-1.1)
P 		167.3
(-3)
P 		235
B 415
(3)
P 		312.7
(-0)
P 		213.1
(-3)
P 		318.8
(0.1)
P 		344.3
(0.9)
P 		246.5
(-2)
P 		202
C 474.7
(3)
P 		279.7
(-1.6)
P 		387
(0.9)
P 		295.8
(-1.2)
P 		233.5
(-2.7)
P 		220.6
(-3)
P 		254
avr 375.9
(3) 		331.5
(1.4) 		308.9
(0.6) 		326.7
(1.2) 		273.3
(-0.7) 		211.5
(-3) 		164
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176746_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7060
Sequence Type Exemplar sequence
Representative Public ID R05D3.9 NCBI
Target Description R05D3.9 /REP_DB=WormBase Gene ID /WP=CE25071 /GB=AAK21444.1 /SUBMIT=ST.LOUIS /CHR=3 /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_066444(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066444 NCBI Caenorhabditis elegans R05D3.9 (R05D3.9) mRNA, complete cds. 11/11 None
SNAP00000035978 ENSEMBL cdna:SNAP chromosome:CEL140:III:8362399:8368606:-1 11/11 None
GENEFINDER00000035995 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8362399:8364415:-1 11/11 None
R05D3.9 ENSEMBL cdna:known chromosome:CEL140:III:8362324:8368750:-1 gene:R05D3.9 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
chrIII:8362394-8368602(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R05D3.9
Entrez Gene 176181 Entrez gene
SwissProt P34542 EMBL-EBI
WormBase CE31049 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK21444 Hypothetical protein R05D3.9 [Caenorhabditis elegans] ref|NP_498845.2| R05D3.9 [Caenorhabditis elegans] sp|P34542|YNC9_CAEEL Hypothetical protein R05D3.9 in chromosome III precursor 0.0
blast CAE71277 Hypothetical protein CBG18160 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:176746_S_AT
ggaaaatttgatccagccactttgatggagtttatcacaaaatcttcgattccttcaatt
attggtatttcaaatggtttcacaacggatctactgtttcatcaaaaacgtccaattctt
attcaaattggcggcgcaggggaatttgagcctttctcgaagttgtctgctcggcaagat
gctcggaaaacctatattttcacaaaaattgatggggaaagtgagatgattaagaaaacc
aaaaaagcattgggagttggggagaacgaatcaataattgtgtttttgaacaaggatcga
gtgcatcgaattccaatttcaaagcctaaatgccctgatcatcttcagaaaattctccag
atgattattacatctgaagcggatcaagttctctcaacaaaagagccacatccattaaga
tatcttcaagttgaaaaagtgaacgaagtattcggattcgaggagactcttgttcttcca
gatcacacacttttcctggattccgatccattctctcgtcatccaccaattacagagggt
ggtggtggtggttgcccatttatgcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAAATTTGATCCAGCCACTTTGA 49 527 1273 Antisense
GGTTTCACAACGGATCTACTGTTTC 372 505 1348 Antisense
GGCGCAGGGGAATTTGAGCCTTTCT 213 541 1405 Antisense
TGAGCCTTTCTCGAAGTTGTCTGCT 48 571 1419 Antisense
TTGTCTGCTCGGCAAGATGCTCGGA 185 709 1435 Antisense
AAAGCCTAAATGCCCTGATCATCTT 232 125 1593 Antisense
GAGCCACATCCATTAAGATATCTTC 342 385 1675 Antisense
TCGAGGAGACTCTTGTTCTTCCAGA 614 601 1730 Antisense
ATCACACACTTTTCCTGGATTCCGA 476 27 1754 Antisense
CTCTCGTCATCCACCAATTACAGAG 581 231 1785 Antisense
GGTGGTGGTTGCCCATTTATGCAAG 34 501 1816 Antisense
Sequence Source Affymetrix Proprietary Database