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[179110_at]

Description C39E9.8 /REP_DB=WormBase Gene ID /WP=CE27838 /TR=Q18541 /GB=CAA94333.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 61      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 55      6grp_total > 60      4grp_total > 58      6grp_highest_sub > 03_04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2006
1 2 3 4 range
A 824.3
(-0.8)
P 		1837.3
(3)
P 		1736.3
(2.6)
P 		257.6
(-3)
P 		1580
B 946.3
(-0.9)
P 		1733.3
(1.5)
P 		2250.8
(3)
P 		245.2
(-3)
P 		2006
C 1015
(-0.5)
P 		2073.8
(3)
P 		2043.4
(2.9)
P 		272.7
(-3)
P 		1801
avr 928.5
(-0.7) 		1881.5
(2.6) 		2010.2
(3) 		258.5
(-3) 		1752

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1180
1 2 3 4 5 6 range
A 1515.5
(-2.2)
P 		1852.2
(-0.5)
P 		1988.8
(0.2)
P 		2531.3
(3)
P 		1351.2
(-3)
P 		1572.6
(-1.9)
P 		1180
B 1809.3
(-0.6)
P 		1420
(-3)
P 		2382.6
(3)
P 		1789.1
(-0.7)
P 		1519.2
(-2.4)
P 		1506.3
(-2.5)
P 		963
C 1857.1
(-0)
P 		1434.8
(-2.8)
P 		2041.3
(1.2)
P 		2317.9
(3)
P 		1410.7
(-3)
P 		1447.8
(-2.8)
P 		907
avr 1727.3
(-0.7) 		1569
(-1.9) 		2137.6
(2.4) 		2212.8
(3) 		1427
(-3) 		1508.9
(-2.4) 		786
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 675
1 2 3 4 range
A 300.1
(0.8)
P 		398.8
(2.2)
P 		453.9
(3)
P 		37.7
(-3)
P 		416
B 301.8
(0.2)
P 		428.1
(1.8)
P 		521.6
(3)
P 		52.3
(-3)
P 		469
C 336
(-0.4)
P 		596.2
(2)
P 		712.2
(3)
P 		46
(-3)
P 		666
avr 312.6
(0.1) 		474.4
(2) 		562.6
(3) 		45.3
(-3) 		517

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 279.4
(-3)
P 		658.7
(3)
P 		433.1
(-0.6)
P 		642
(2.7)
P 		407.7
(-1)
P 		382.9
(-1.4)
P 		379
B 629.6
(3)
P 		472.6
(-3)
P 		578.6
(1.1)
P 		473.9
(-3)
P 		617.2
(2.5)
P 		561.7
(0.4)
P 		157
C 688.3
(3)
P 		437.8
(-3)
P 		519.5
(-1)
P 		466.1
(-2.3)
P 		456.5
(-2.6)
P 		484.7
(-1.9)
P 		251
avr 532.4
(3) 		523
(2) 		510.4
(0.6) 		527.3
(2.5) 		493.8
(-1.1) 		476.4
(-3) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179110_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8771
Sequence Type Exemplar sequence
Representative Public ID C39E9.8 NCBI
Target Description C39E9.8 /REP_DB=WormBase Gene ID /WP=CE27838 /TR=Q18541 /GB=CAA94333.2 /SUBMIT=HINXTON /CHR=4 /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_001027882(11), NM_001027881(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027882 NCBI Caenorhabditis elegans C39E9.8b (C39E9.8) mRNA, complete cds. 11/11 None
NM_001027881 NCBI Caenorhabditis elegans C39E9.8a (C39E9.8) mRNA, complete cds. 11/11 None
SNAP00000026307 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13079478:13081299:1 10/11 None
GENEFINDER00000026314 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13079478:13082531:1 11/11 None
C39E9.8b ENSEMBL cdna:known chromosome:CEL140:IV:13079455:13082575:1 gene:C39E9.8 11/11 None
C39E9.8a ENSEMBL cdna:known chromosome:CEL140:IV:13079478:13082735:1 gene:C39E9.8 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
chrIV:13079483-13082537(+) 100.0 100.0
Public Domain and Genome References
Ensembl C39E9.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94333 Hypothetical protein C39E9.8a [Caenorhabditis elegans] ref|NP_001023052.1| C39E9.8a [Caenorhabditis elegans] 1.0E-143
blast CAE54887 Hypothetical protein C39E9.8b [Caenorhabditis elegans] ref|NP_001023053.1| C39E9.8b [Caenorhabditis elegans] 1.0E-142
blast CAA94333 Hypothetical protein C39E9.8a [Caenorhabditis elegans] ref|NP_001023052.1| C39E9.8a [Caenorhabditis elegans] 1.0E-140
blast CAE54887 Hypothetical protein C39E9.8b [Caenorhabditis elegans] ref|NP_001023053.1| C39E9.8b [Caenorhabditis elegans] 1.0E-140
Sequence
Target Sequence 
>C. ELEGANS:179110_AT
agcaaaactcacaggccaaaccgtccgacaatgctcgtgctcggagcaaagagtctgtgt
ggaggaaatgaaacttcaggctaaagattgcacagttccatgctttcaaaaattctcatc
catcacatcgcgtccaaatgacttgaaaaagtgtttcgacgagaaagacaacatcctcga
ggacttcctgacctgtttcgaaaaccgcgttgaagcatgtgtcaatgatcaacatggacc
acagatccagaaaactgatatccgcggaatcttcaaagtgactgagaagagtattgcgac
gcagacaaacacattccagacaatgatcaaaccgatcaagcatattcttgatgcaactgg
tgacttcgccctctgcgtcaaagattgcttcttggagaagaataagagcggtttctgctt
tgatagaaaaggatgtcaacctttggttgccgagac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCAAAACTCACAGGCCAAACCGTC 363 69 129 Antisense
GTCCGACAATGCTCGTGCTCGGAGC 561 475 151 Antisense
AAGATTGCACAGTTCCATGCTTTCA 86 157 212 Antisense
GCTTTCAAAAATTCTCATCCATCAC 128 305 230 Antisense
TCCATCACATCGCGTCCAAATGACT 337 589 247 Antisense
ACAACATCCTCGAGGACTTCCTGAC 217 113 296 Antisense
TCCTGACCTGTTTCGAAAACCGCGT 338 591 314 Antisense
GATATCCGCGGAATCTTCAAAGTGA 266 425 385 Antisense
ATTGCGACGCAGACAAACACATTCC 533 5 421 Antisense
TTCGCCCTCTGCGTCAAAGATTGCT 208 697 493 Antisense
GATGTCAACCTTTGGTTGCCGAGAC 358 409 560 Antisense
Sequence Source Affymetrix Proprietary Database