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[175990_at]

Description R13A5.3 /REP_DB=WormBase Gene ID /WP=CE01375 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 86      6grp_total > 47      4grp_total > 30      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 358
1 2 3 4 range
A 766.4
(2.1)
P 		640.1
(-1.1)
P 		564.2
(-3)
P 		799.9
(3)
P 		236
B 921.9
(3)
P 		634.2
(-1.9)
P 		571.8
(-3)
P 		680
(-1.1)
P 		350
C 912.3
(3)
P 		622.7
(-3)
P 		620.7
(-3)
P 		788.2
(0.4)
P 		292
avr 866.9
(3) 		632.3
(-2) 		585.6
(-3) 		756
(0.6) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 878
1 2 3 4 5 6 range
A 997.8
(0.7)
P 		965.1
(0.4)
P 		965.1
(0.4)
P 		763.8
(-1.5)
P 		613.7
(-3)
P 		1232.4
(3)
P 		619
B 1388
(2.8)
P 		1139.7
(0.5)
P 		1078.8
(-0.1)
P 		776.7
(-3)
P 		787.6
(-2.9)
P 		1407.4
(3)
P 		631
C 1350.9
(1.9)
P 		1035.5
(-0.6)
P 		743.1
(-2.9)
P 		961.9
(-1.2)
P 		730.5
(-3)
P 		1491.2
(3)
P 		761
avr 1245.6
(1.8) 		1046.8
(0) 		929
(-1) 		834.1
(-1.9) 		710.6
(-3) 		1377
(3) 		666
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 185
1 2 3 4 range
A 279.1
(3)
P 		139
(-2.2)
P 		147.5
(-1.9)
P 		117.1
(-3)
P 		162
B 294
(3)
P 		156.6
(-2.1)
P 		132.5
(-3)
P 		144.9
(-2.5)
P 		162
C 302
(3)
P 		179
(-1.4)
P 		216.3
(-0)
P 		132.9
(-3)
P 		169
avr 291.7
(3) 		158.2
(-2) 		165.4
(-1.7) 		131.6
(-3) 		160

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 341
1 2 3 4 5 6 range
A 183.9
(-3)
P 		343.2
(3)
P 		210.2
(-2)
P 		193.7
(-2.6)
P 		185.2
(-3)
P 		300
(1.4)
P 		159
B 482.9
(2.2)
P 		379.4
(0.3)
P 		262
(-1.9)
P 		205.7
(-3)
P 		320
(-0.9)
P 		524.8
(3)
P 		319
C 500.7
(3)
P 		316
(-0.6)
P 		189.1
(-3)
P 		193.4
(-2.9)
P 		236.4
(-2.1)
P 		499.2
(3)
P 		312
avr 389.2
(1.7) 		346.2
(0.7) 		220.4
(-2.4) 		197.6
(-3) 		247.2
(-1.8) 		441.3
(3) 		244
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175990_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6484
Sequence Type Exemplar sequence
Representative Public ID R13A5.3 NCBI
Target Description R13A5.3 /REP_DB=WormBase Gene ID /WP=CE01375 /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_066257(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066257 NCBI Caenorhabditis elegans R13A5.3 (R13A5.3) mRNA, complete cds. 11/11 None
SNAP00000038245 ENSEMBL cdna:SNAP chromosome:CEL140:III:7566490:7567346:1 11/11 None
R13A5.3 ENSEMBL cdna:known chromosome:CEL140:III:7566490:7567346:1 gene:R13A5.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000038266 3/11 Cross Hyb Matching Probes None
GENEFINDER00000038264 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7566487-7567344(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R13A5.3
Entrez Gene 187854 Entrez gene
SwissProt Q95Y92 EMBL-EBI
WormBase CE01375 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK84464 Hypothetical protein R13A5.3 [Caenorhabditis elegans] ref|NP_498658.1| R13A5.3 [Caenorhabditis elegans] 5.0E-79
blast CAE64448 Hypothetical protein CBG09155 [Caenorhabditis briggsae] 1.0E-73
blast AAP82637 Hypothetical protein T19C3.9 [Caenorhabditis elegans] ref|NP_001022770.1| T19C3.9 [Caenorhabditis elegans] 4.0E-36
Protein Domains
Database ID Description E-Value
Pfam IPR001534 EMBL-EBI Transthyretin-like 8.4E-57
Sequence
Target Sequence 
>C. ELEGANS:175990_AT
ctctttgccactgtttcatgtacatttgcaattggcttcaaacagtctgtcgcggtgaaa
ggaaaactgatttgtaatgatgatccagcaaaggatgtgagagttaagatgtacgacaaa
gatgttttaatggatacaaaattggacgacaaatcgacagatggtaatggagaattttat
ttgactggtggagattctgagattagctccatcgatccacgtgtaaatatttatcatgat
tgcgacgacggatggacgccttgccaacgtcgtcttaccattggtgtaccagacaagtac
atcacaaatagtgataaaccaactaaagttttcgatctcggaacaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCTTTGCCACTGTTTCATGTACAT 630 229 31 Antisense
GCAATTGGCTTCAAACAGTCTGTCG 629 321 58 Antisense
CAAACAGTCTGTCGCGGTGAAAGGA 428 181 69 Antisense
GAGATTCTGAGATTAGCTCCATCGA 306 397 221 Antisense
TAGCTCCATCGATCCACGTGTAAAT 654 649 234 Antisense
ATATTTATCATGATTGCGACGACGG 63 19 257 Antisense
TTGCGACGACGGATGGACGCCTTGC 161 695 270 Antisense
TTGCCAACGTCGTCTTACCATTGGT 55 699 291 Antisense
GTCGTCTTACCATTGGTGTACCAGA 235 473 299 Antisense
ACCAGACAAGTACATCACAAATAGT 268 85 318 Antisense
TAAAGTTTTCGATCTCGGAACAATT 312 639 354 Antisense
Sequence Source Affymetrix Proprietary Database