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[176733_at]

Description B0336.13 /REP_DB=WormBase Gene ID /WP=CE26429 /GB=AAK18861.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 87      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 93      6grp_total > 87      4grp_total > 01      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 355
1 2 3 4 range
A 296
(-2.5)
P 		266.1
(-3)
P 		312.8
(-2.2)
P 		601.5
(3)
P 		335
B 299.2
(-2.8)
P 		292.7
(-3)
P 		306.8
(-2.5)
P 		473
(3)
P 		180
C 246.9
(-3)
P 		273.6
(-2.4)
P 		282.6
(-2.2)
P 		531.7
(3)
P 		285
avr 280.7
(-2.9) 		277.5
(-3) 		300.7
(-2.5) 		535.4
(3) 		258

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 756
1 2 3 4 5 6 range
A 237.2
(-3)
P 		238.3
(-3)
P 		307.2
(-2.4)
P 		353.1
(-2)
P 		547.5
(-0.4)
P 		962.6
(3)
P 		725
B 255.2
(-3)
P 		275.5
(-2.8)
P 		316.6
(-2.5)
P 		307.5
(-2.6)
P 		565.7
(-0.4)
P 		982.4
(3)
P 		727
C 290.5
(-2.8)
P 		263.6
(-3)
P 		276.6
(-2.9)
P 		327.6
(-2.5)
P 		557.7
(-0.6)
P 		993.3
(3)
P 		730
avr 261
(-3) 		259.1
(-3) 		300.1
(-2.7) 		329.4
(-2.4) 		557
(-0.5) 		979.4
(3) 		720
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 107.8
(3)
P 		57.8
(-3)
P 		81.8
(-0.1)
P 		88
(0.6)
P 		50
B 95.4
(1.9)
P 		72.3
(-2.8)
P 		71.1
(-3)
P 		100.8
(3)
P 		30
C 81.7
(-2.1)
P 		78.7
(-3)
P 		98.5
(3)
P 		89.7
(0.3)
P 		20
avr 95
(3) 		69.6
(-3) 		83.8
(0.4) 		92.8
(2.5) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 323
1 2 3 4 5 6 range
A 43.7
(-3)
P 		84.8
(-1.7)
P 		66.9
(-2.3)
P 		89.5
(-1.6)
P 		165.2
(0.8)
P 		234.4
(3)
P 		191
B 88.8
(-2.8)
P 		91.7
(-2.7)
P 		76.9
(-3)
P 		81.5
(-2.9)
P 		229.8
(0.2)
P 		366.3
(3)
P 		289
C 107.7
(-2.1)
P 		80.4
(-2.7)
P 		70.4
(-2.9)
P 		65.9
(-3)
P 		180.5
(-0.4)
P 		332.5
(3)
P 		267
avr 80.1
(-2.8) 		85.6
(-2.6) 		71.4
(-3) 		79
(-2.8) 		191.8
(0) 		311.1
(3) 		240
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176733_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8039
Sequence Type Exemplar sequence
Representative Public ID B0336.13 NCBI
Target Description B0336.13 /REP_DB=WormBase Gene ID /WP=CE26429 /GB=AAK18861.1 /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_065825(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065825 NCBI Caenorhabditis elegans B0336.13 (B0336.13) mRNA, complete cds. 11/11 None
SNAP00000008872 ENSEMBL cdna:SNAP chromosome:CEL140:III:5693997:5694530:1 11/11 None
GENEFINDER00000008884 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5693997:5694530:1 11/11 None
B0336.13 ENSEMBL cdna:known chromosome:CEL140:III:5693985:5694628:1 gene:B0336.13 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:5693995-5694529(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl B0336.13
Entrez Gene 175791 Entrez gene
SwissProt Q9BIB4 EMBL-EBI
WormBase CE26429 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6367 transcription initiation from RNA polymerase II promoter inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5672 transcription factor TFIIA complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3702 RNA polymerase II transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK18861 Hypothetical protein B0336.13 [Caenorhabditis elegans] ref|NP_498226.1| B0336.13 [Caenorhabditis elegans] sp|Q9BIB4|YMYD_CAEEL Transcription initiation factor IIA small chain homolog 2.0E-65
blast T15332 hypothetical protein B0336.5 - Caenorhabditis elegans 2.0E-65
blast CAE64318 Hypothetical protein CBG08996 [Caenorhabditis briggsae] 2.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR003194 EMBL-EBI Transcription initiation factor IIA, gamma subunit 1.9E-11
Pfam IPR003194 EMBL-EBI Transcription initiation factor IIA, gamma subunit 3.8E-13
Sequence
Target Sequence 
>C. ELEGANS:176733_AT
gtcatacgctctttaccgagggaccacactgggtcaggcactcgataaaactcttgagga
catggaatccgaaggacttctcacgaaatctcttgcttcgaaagttctgcaacaatttga
taaaagcatgaacaagcaaatctcgcggcttccaaaagagaaaatgaatttttgtgcgac
acaactgctcacttatcgatattgtgataacgtttggacgtttattctcaataatgtcac
gttgaaagatccccagcgatcgtttgatgagcctattgataaactgaaagtggtcgcctg
tgatggtcgtcaaacaagccttctgcagacattgagcgcccagggaccatccaagagagt
c

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCATACGCTCTTTACCGAGGGACC 551 465 18 Antisense
GAGGGACCACACTGGGTCAGGCACT 322 401 35 Antisense
AGGACTTCTCACGAAATCTCTTGCT 651 55 90 Antisense
GAACAAGCAAATCTCGCGGCTTCCA 689 351 147 Antisense
GACACAACTGCTCACTTATCGATAT 101 367 195 Antisense
ATGTCACGTTGAAAGATCCCCAGCG 56 49 251 Antisense
CCCCAGCGATCGTTTGATGAGCCTA 432 261 268 Antisense
TGAAAGTGGTCGCCTGTGATGGTCG 348 571 302 Antisense
TGATGGTCGTCAAACAAGCCTTCTG 324 565 318 Antisense
CTTCTGCAGACATTGAGCGCCCAGG 662 219 337 Antisense
CGCCCAGGGACCATCCAAGAGAGTC 429 255 354 Antisense
Sequence Source Affymetrix Proprietary Database