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[186827_s_at]

Description R03D7.4 /REP_DB=WormBase Gene ID /WP=CE01611 /TR=SW:Q09413 /GB=CAA86857.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 39      6grp_high1_10_10 > 82      4grp_highest_8_8 > 13      4grp_high_8_8 > 30      6grp_highest_nonorm > 75      6grp_total > 80      4grp_total > 24      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 224
1 2 3 4 range
A 653.4
(-0.3)
P 		622
(-3)
P 		652.6
(-0.4)
P 		692.3
(3)
P 		70
B 647.3
(-3)
P 		738.8
(-0.2)
P 		695.2
(-1.6)
P 		846.1
(3)
P 		199
C 628.7
(-3)
P 		738.7
(0.7)
P 		806.3
(3)
P 		692.9
(-0.8)
P 		178
avr 643.1
(-3) 		699.8
(0.4) 		718
(1.5) 		743.8
(3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 426
1 2 3 4 5 6 range
A 876.5
(-0.8)
P 		782.9
(-2.6)
P 		762.5
(-3)
P 		986
(1.3)
P 		1077.8
(3)
P 		822.1
(-1.9)
P 		315
B 934.3
(-3)
P 		955.6
(-2.2)
P 		1077.7
(2.4)
P 		1092.3
(3)
P 		994.8
(-0.7)
P 		1018.1
(0.2)
P 		158
C 764.7
(-3)
P 		920.5
(-0.8)
P 		811.7
(-2.3)
P 		1188
(3)
P 		845.7
(-1.9)
P 		965
(-0.2)
P 		423
avr 858.5
(-3) 		886.3
(-2.3) 		884
(-2.3) 		1088.8
(3) 		972.8
(-0) 		935.1
(-1) 		230
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 180
1 2 3 4 range
A 237.9
(3)
P 		135
(-1.5)
P 		170.6
(0)
P 		101.3
(-3)
P 		137
B 206.4
(3)
P 		182.5
(-0.2)
P 		161.1
(-3)
P 		180.3
(-0.5)
P 		45
C 208.1
(0.3)
P 		212.4
(0.5)
P 		281
(3)
P 		116.8
(-3)
P 		164
avr 217.5
(3) 		176.6
(0.1) 		204.2
(2.1) 		132.8
(-3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 243
1 2 3 4 5 6 range
A 161.6
(-3)
P 		278.4
(1.3)
P 		166.1
(-2.8)
P 		250.1
(0.2)
P 		325.2
(3)
P 		200.2
(-1.6)
P 		164
B 325.1
(-0.3)
P 		318.1
(-0.6)
P 		261.7
(-3)
P 		289.3
(-1.8)
P 		404.2
(3)
P 		379.7
(2)
P 		143
C 283.5
(1)
P 		280.9
(0.8)
P 		206.6
(-3)
P 		238.9
(-1.3)
P 		273.7
(0.5)
P 		323
(3)
P 		116
avr 256.7
(-0.8) 		292.5
(1) 		211.5
(-3) 		259.4
(-0.7) 		334.4
(3) 		301
(1.4) 		123
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186827_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2888
Sequence Type Exemplar sequence
Representative Public ID R03D7.4 NCBI
Target Description R03D7.4 /REP_DB=WormBase Gene ID /WP=CE01611 /TR=SW:Q09413 /GB=CAA86857.1 /SUBMIT=HINXTON /CHR=2 /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_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
SNAP00000040569 ENSEMBL cdna:SNAP chromosome:CEL140:II:10943659:10945478:-1 11/11 None
GENEFINDER00000040577 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10934775:10945478:-1 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:10943655-10945475(-) 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 AAC02594 Hypothetical protein F58H7.6 [Caenorhabditis elegans] ref|NP_500013.1| F58H7.6 [Caenorhabditis elegans] 1.0E-150
blast CAE73228 Hypothetical protein CBG20634 [Caenorhabditis briggsae] 1.0E-149
blast CAE73228 Hypothetical protein CBG20634 [Caenorhabditis briggsae] 1.0E-146
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
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.8E-34
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 4.4E-5
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 6.8E-43
Sequence
Target Sequence 
>C. ELEGANS:186827_S_AT
gccaaactgttctgatgtcgcacattgacatgatcgatcatgtcggaatagtaccatttg
atctactgaagcctgttcttgaccacgcgagcactgaccaactccgacatatactggacg
tgaatccgatgcttgttgaagacgctgacgagatgttccacgagatggtcagcagagagt
ttccaaaatatgcgaatcgagagaagtcgggatggacgtggcgagaaatgtatgatcgac
tcgttgagaagaagcagaaaaaggaaaatgataagctggaaatgttgacgtctcgaatcg
ggaaatcgaactcggcacagagtcagggacgtcaaacgatggtaatcgatatggcgcata
cgagagttcgctccaagtcattcttcaatacagtcaaggatagtcaggtgaagatgtctg
ccactccatcggcgttacaactgtcacaggcacggaaaaatgtgaaaattgagggaaaag
cccaacttcgaactataacaccacgtggcggtggagtacct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAAACTGTTCTGATGTCGCACAT 267 277 689 Antisense
GATCTACTGAAGCCTGTTCTTGACC 664 419 748 Antisense
CACTGACCAACTCCGACATATACTG 531 197 780 Antisense
GGACGTGAATCCGATGCTTGTTGAA 578 523 804 Antisense
GAAATGTTGACGTCTCGAATCGGGA 179 361 967 Antisense
TGGCGCATACGAGAGTTCGCTCCAA 331 545 1040 Antisense
TTCGCTCCAAGTCATTCTTCAATAC 401 697 1055 Antisense
CAGGTGAAGATGTCTGCCACTCCAT 4 207 1093 Antisense
CCATCGGCGTTACAACTGTCACAGG 437 257 1114 Antisense
GCCCAACTTCGAACTATAACACCAC 363 285 1168 Antisense
AACACCACGTGGCGGTGGAGTACCT 529 133 1185 Antisense
Sequence Source Affymetrix Proprietary Database