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[180139_at]

Description R08E5.4 /REP_DB=WormBase Gene ID /WP=CE12578 /TR=O01595 /GB=AAB52278.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 87      4grp_total > 02      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1269
1 2 3 4 range
A 41.5
(-2.9)
A 		34.6
(-2.9)
A 		19.4
(-3)
A 		1146.4
(3)
P 		1127
B 24.9
(-2.9)
A 		4.3
(-3)
A 		22.6
(-2.9)
A 		1271.7
(3)
P 		1267
C 18.4
(-2.9)
P 		3.1
(-3)
A 		13.4
(-3)
A 		1264.7
(3)
P 		1262
avr 28.3
(-2.9) 		14
(-3) 		18.5
(-3) 		1227.6
(3) 		1214

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 911
1 2 3 4 5 6 range
A 16.8
(-2.8)
A 		11.2
(-2.9)
A 		3.4
(-3)
A 		69.6
(-2.1)
P 		203.1
(-0.4)
P 		460.4
(3)
P 		457
B 32.1
(-2.8)
A 		3.5
(-3)
A 		19.1
(-2.9)
A 		51.9
(-2.7)
P 		343.2
(-0.8)
P 		912.1
(3)
P 		909
C 8.6
(-2.9)
A 		14.3
(-2.9)
A 		1.1
(-3)
A 		92.6
(-2.3)
P 		245.9
(-1.1)
P 		773.2
(3)
P 		772
avr 19.2
(-2.9) 		9.7
(-3) 		7.9
(-3) 		71.4
(-2.5) 		264.1
(-0.8) 		715.2
(3) 		707
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 270
1 2 3 4 range
A 15.1
(-2.6)
A 		7.5
(-2.9)
A 		5.1
(-3)
A 		167.8
(3)
P 		163
B 7.9
(-2.8)
A 		1.1
(-3)
A 		5.2
(-2.9)
A 		271
(3)
P 		270
C 6.1
(-2.9)
P 		0.9
(-3)
A 		4.7
(-2.9)
A 		213.2
(3)
P 		212
avr 9.7
(-2.8) 		3.2
(-3) 		5
(-2.9) 		217.3
(3) 		214

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 340
1 2 3 4 5 6 range
A 3.1
(-2.9)
A 		4
(-2.8)
A 		0.7
(-3)
A 		17.6
(-2.1)
P 		61.3
(0.3)
P 		112.1
(3)
P 		111
B 11.2
(-2.8)
A 		1.2
(-3)
A 		4.6
(-2.9)
A 		13.7
(-2.8)
P 		139.4
(-0.6)
P 		340.1
(3)
P 		339
C 3.2
(-2.9)
A 		4.4
(-2.9)
A 		0.3
(-3)
A 		18.6
(-2.6)
P 		79.6
(-1.2)
P 		258.8
(3)
P 		259
avr 5.8
(-2.9) 		3.2
(-3) 		1.9
(-3) 		16.6
(-2.6) 		93.4
(-0.7) 		237
(3) 		235
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180139_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15856
Sequence Type Exemplar sequence
Representative Public ID R08E5.4 NCBI
Target Description R08E5.4 /REP_DB=WormBase Gene ID /WP=CE12578 /TR=O01595 /GB=AAB52278.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071642(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071642 NCBI Caenorhabditis elegans R08E5.4 (R08E5.4) mRNA, complete cds. 11/11 None
SNAP00000044449 ENSEMBL cdna:SNAP chromosome:CEL140:V:3769245:3769590:1 11/11 None
GENEFINDER00000044455 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3769245:3769590:1 11/11 None
R08E5.4 ENSEMBL cdna:known chromosome:CEL140:V:3769251:3769590:1 gene:R08E5.4 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
chrV:3769250-3769590(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R08E5.4
Entrez Gene 187702 Entrez gene
SwissProt O01595 EMBL-EBI
WormBase CE12578 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB52278 Hypothetical protein R08E5.4 [Caenorhabditis elegans] ref|NP_504043.1| R08E5.4 [Caenorhabditis elegans] 1.0E-38
blast AAB65335 Hypothetical protein F59A7.2 [Caenorhabditis elegans] ref|NP_503550.1| F59A7.2 [Caenorhabditis elegans] 2.0E-14
blast AAF59487 Hypothetical protein Y39H10A.1 [Caenorhabditis elegans] ref|NP_504042.1| Y39H10A.1 [Caenorhabditis elegans] 2.0E-13
Sequence
Target Sequence 
>C. ELEGANS:180139_AT
gactgatatggatcctagtaacatgacgggaggtccaatgaatgggcactcggcggaaaa
gtcttccgaggagaaaaagtcacctagaagtagtcgtggagttggtgaagatctcaaaaa
cgctggcaaggatgctatgaataccatggaaaacgctgggaaaaatgcatgggataaggc
tggagagttgggaaaatctggtattaacaccgttcaatctgccggatctgccgtgaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTGATATGGATCCTAGTAACATG 435 375 15 Antisense
GTAACATGACGGGAGGTCCAATGAA 495 461 32 Antisense
GGTCCAATGAATGGGCACTCGGCGG 507 491 46 Antisense
AAAGTCACCTAGAAGTAGTCGTGGA 551 121 90 Antisense
GTAGTCGTGGAGTTGGTGAAGATCT 229 457 104 Antisense
GAAGATCTCAAAAACGCTGGCAAGG 152 339 121 Antisense
GGCAAGGATGCTATGAATACCATGG 33 535 139 Antisense
GCATGGGATAAGGCTGGAGAGTTGG 586 309 181 Antisense
GAAAATCTGGTATTAACACCGTTCA 16 353 206 Antisense
AACACCGTTCAATCTGCCGGATCTG 84 135 220 Antisense
CAATCTGCCGGATCTGCCGTGAAGA 122 181 229 Antisense
Sequence Source Affymetrix Proprietary Database