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[173532_at]

Description CEC5941 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R03D7.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C08594 /WB_GENE_ID=R03D7.4 /WP=CE01611 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk118h3 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 56      6grp_high1_10_10 > 65      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 74      6grp_total > 65      4grp_total > 57      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 494
1 2 3 4 range
A 606.3
(0.2)
P 		611.8
(0.3)
P 		756.7
(3)
P 		432.2
(-3)
P 		325
B 614.8
(-3)
P 		926.1
(3)
P 		901.8
(2.5)
P 		740.9
(-0.6)
P 		311
C 524
(-1.9)
P 		748.6
(3)
P 		686.9
(1.7)
P 		474.2
(-3)
P 		274
avr 581.7
(-2.2) 		762.2
(2.5) 		781.8
(3) 		549.1
(-3) 		233

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 613
1 2 3 4 5 6 range
A 678.5
(0.6)
P 		580.3
(-0.9)
P 		844.3
(3)
P 		438.2
(-3)
P 		635.7
(-0.1)
P 		642.9
(0)
P 		406
B 659
(-2)
P 		743.1
(-0.6)
P 		883.2
(1.7)
P 		962.8
(3)
P 		595.9
(-3)
P 		839.5
(1)
P 		367
C 526.6
(-2.5)
P 		568.3
(-2.1)
P 		515
(-2.6)
P 		784.8
(0.2)
P 		478.2
(-3)
P 		1050.7
(3)
P 		573
avr 621.4
(-1.9) 		630.6
(-1.7) 		747.5
(0.9) 		728.6
(0.5) 		569.9
(-3) 		844.4
(3) 		275
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 176
1 2 3 4 range
A 220.8
(3)
P 		132.8
(-0.4)
P 		197.8
(2.1)
P 		63.3
(-3)
P 		158
B 196.1
(0.2)
P 		228.7
(3)
P 		209
(1.3)
P 		157.9
(-3)
P 		71
C 173.5
(0.5)
P 		215.2
(2.1)
P 		239.4
(3)
P 		80
(-3)
P 		159
avr 196.8
(2) 		192.2
(1.8) 		215.4
(3) 		100.4
(-3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 241
1 2 3 4 5 6 range
A 125.1
(-2.1)
P 		206.4
(3)
P 		183.9
(1.6)
P 		111.1
(-3)
P 		191.8
(2.1)
P 		156.5
(-0.1)
P 		95
B 229.3
(-2.1)
P 		247.3
(-1)
P 		214.5
(-3)
P 		255
(-0.5)
P 		242.1
(-1.3)
P 		313.1
(3)
P 		99
C 195.2
(-1.3)
P 		173.4
(-1.8)
P 		131.1
(-3)
P 		157.8
(-2.3)
P 		154.8
(-2.4)
P 		351.7
(3)
P 		221
avr 183.2
(-2.5) 		209
(-0.9) 		176.5
(-2.9) 		174.6
(-3) 		196.2
(-1.7) 		273.8
(3) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173532_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23196
Sequence Type Exemplar sequence
Representative Public ID CEC5941 NCBI
Target Description CEC5941 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R03D7.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C08594 /WB_GENE_ID=R03D7.4 /WP=CE01611 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk118h3 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_063954(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063954 NCBI Caenorhabditis elegans R03D7.4 (R03D7.4) mRNA, complete cds. 11/11 None
R03D7.4 ENSEMBL cdna:known chromosome:CEL140:II:10943325:10945571:-1 gene:R03D7.4 11/11 A 
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
chrII:10943383-10945476(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R03D7.4
Entrez Gene 174683 Entrez gene
SwissProt Q09413 EMBL-EBI
WormBase CE01611 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA86857 Hypothetical protein R03D7.4 [Caenorhabditis elegans] ref|NP_496355.1| R03D7.4 [Caenorhabditis elegans] sp|Q09413|ELOA1_CAEEL Transcription elongation factor B polypeptide 3 (RNA polymerase II transcription factor SIII subunit A) (Elongin A) 0.0
blast CAE73228 Hypothetical protein CBG20634 [Caenorhabditis briggsae] 1.0E-149
blast XP_396851 PREDICTED: similar to CG6755-PA, isoform A [Apis mellifera] 3.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR010684 EMBL-EBI RNA polymerase II transcription factor SIII subunit A 4.3E-85
Sequence
Target Sequence 
>C. ELEGANS:173532_AT
ccaatttcttcttcatcatcgtatttgtattcttttcccattacgctgcacagtttctag
acacttccttttcataatgtttcatgtattactcaatttttcactgtattcatttttct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAATTTCTTCTTCATCATCGTATT 436 277 1414 Antisense
ATTTCTTCTTCATCATCGTATTTGT 173 17 1417 Antisense
CTTCATCATCGTATTTGTATTCTTT 394 221 1424 Antisense
ATTTGTATTCTTTTCCCATTACGCT 167 19 1436 Antisense
TTCCCATTACGCTGCACAGTTTCTA 121 699 1448 Antisense
CGCTGCACAGTTTCTAGACACTTCC 556 255 1457 Antisense
GCACAGTTTCTAGACACTTCCTTTT 639 315 1461 Antisense
GTTTCTAGACACTTCCTTTTCATAA 176 451 1466 Antisense
AGACACTTCCTTTTCATAATGTTTC 575 71 1472 Antisense
GTTTCATGTATTACTCAATTTTTCA 119 451 1492 Antisense
AATTTTTCACTGTATTCATTTTTCT 473 175 1508 Antisense
Sequence Source Affymetrix Proprietary Database