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[172670_x_at]

Description F26A3.3 /REP_DB=WormBase Gene ID /WP=CE27140 /GEN=ego-1 /TR=Q93593 /GB=CAB01701.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_highest_8_8 > 43      4grp_high_8_8 > 32      6grp_highest_nonorm > 72      6grp_total > 60      4grp_total > 47      6grp_cgc > 95      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 300
1 2 3 4 range
A 439.9
(3)
P 		183.6
(-3)
P 		200.7
(-2.6)
P 		190.8
(-2.8)
P 		256
B 482.1
(3)
P 		231.9
(-3)
P 		253
(-2.5)
P 		260.8
(-2.3)
P 		250
C 483.9
(3)
P 		233.4
(-3)
P 		312.7
(-1.1)
P 		285.6
(-1.7)
P 		251
avr 468.6
(3) 		216.3
(-3) 		255.5
(-2.1) 		245.7
(-2.3) 		252

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 363
1 2 3 4 5 6 range
A 451.7
(3)
P 		329.2
(-3)
P 		430.2
(1.9)
P 		391.7
(0.1)
P 		425.4
(1.7)
P 		388.1
(-0.1)
P 		123
B 443.5
(2)
P 		465.5
(3)
P 		430.5
(1.3)
P 		423
(1)
P 		339.7
(-3)
P 		430.8
(1.3)
P 		126
C 325.4
(-1.6)
P 		395.9
(-0.4)
P 		351.7
(-1.1)
P 		600.9
(3)
P 		238.1
(-3)
P 		441.1
(0.4)
P 		363
avr 406.9
(0.2) 		396.9
(-0.3) 		404.1
(0) 		471.9
(3) 		334.4
(-3) 		420
(0.7) 		138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 160.2
(3)
P 		39.8
(-2.5)
P 		52.5
(-1.9)
P 		27.9
(-3)
P 		132
B 153.7
(3)
P 		57.3
(-2.9)
P 		58.6
(-2.8)
P 		55.6
(-3)
P 		98
C 160.2
(3)
P 		67.1
(-2)
P 		109
(0.3)
P 		48.2
(-3)
P 		112
avr 158
(3) 		54.7
(-2.4) 		73.4
(-1.4) 		43.9
(-3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 83.3
(-3)
P 		117.1
(1.5)
P 		93.7
(-1.6)
P 		99.3
(-0.9)
P 		128.4
(3)
P 		94.5
(-1.5)
P 		45
B 154.3
(2.3)
P 		154.9
(2.4)
P 		104.5
(-3)
P 		112
(-2.2)
P 		138
(0.6)
P 		160.7
(3)
P 		56
C 120.6
(0.7)
P 		120.8
(0.7)
P 		89.5
(-1.9)
P 		120.8
(0.7)
P 		77
(-3)
P 		147.7
(3)
P 		71
avr 119.4
(0.7) 		130.9
(2.5) 		95.9
(-3) 		110.7
(-0.7) 		114.5
(-0.1) 		134.3
(3) 		38
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172670_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1809
Sequence Type Exemplar sequence
Representative Public ID F26A3.3 NCBI
Target Description F26A3.3 /REP_DB=WormBase Gene ID /WP=CE27140 /GEN=ego-1 /TR=Q93593 /GB=CAB01701.2 /SUBMIT=HINXTON /CHR=1 /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_059730(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059730 NCBI Caenorhabditis elegans RNA-dependent RNA polymerase Family family member (rrf-1) (rrf-1) mRNA, complete cds. 9/11 A 
SNAP00000002468 ENSEMBL cdna:SNAP chromosome:CEL140:I:7651767:7657894:-1 9/11 None
GENEFINDER00000002474 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7651767:7657894:-1 9/11 None
F26A3.8 ENSEMBL cdna:known chromosome:CEL140:I:7651558:7657904:-1 gene:F26A3.8 9/11 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
chrI:7651697-7664330(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rrf-1
Ensembl F26A3.8
Entrez Gene 172523 Entrez gene
SwissProt Q9NDH1 EMBL-EBI
WormBase CE27141 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19817_S_AT RNA-dependent RNA polymerase, putative at
ATH1-121501:254933_AT RNA-dependent RNA polymerase, putative at
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3968 RNA-directed RNA polymerase activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAC42290 Hypothetical protein F26A3.8 [Caenorhabditis elegans] ref|NP_492131.1| RNA-dependent RNA polymerase Family family member (rrf-1) [Caenorhabditis elegans] gb|AAF80368.1| RRF-1 [Caenorhabditis elegans] 0.0
blast CAC35915 Hypothetical protein M01G12.12 [Caenorhabditis elegans] emb|CAC35914.1| Hypothetical protein M01G12.12 [Caenorhabditis elegans] ref|NP_493057.1| RNA-dependent RNA polymerase Family family member (rrf-2) [Caenorhabditis elegans] 0.0
blast CAE72312 Hypothetical protein CBG19448 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007855 EMBL-EBI RNA dependent RNA polymerase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:172670_X_AT
gaggcaatatcgatccacttactgaaaaaaaaagatcagatatggtaaggaataaggggg
tcatcgaacatcgtcgatttttcgatttcttcgaaaaaatggtcaaattcttccaattta
tgggatgtcggaagttcagaaaaatgtcgactttatccttttgtcctctcaacttctcat
cgatttttatgcgtggagaatggcgaatattccatgaatcagctctcaaaacctactaca
atattctgtttaatctacgttttgaagagcttccagtatcatctgatccaacaattacag
ctgagacgatggatcgagagtgtgaaccatttgttatcgagttacccgaaaatataaatg
tgaatgatctgatcaataatatgaagaaacacacaaatgtttcaactgtaaagatgcggc
gacaggagaaaaatccgataaacgataaggcgaaaccaaagactacagttcgttacatcg
tctccgtctccggaactctcgaatcaattcaaatgctcaaaaagctttcagcagttacaa
ttccaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGCAATATCGATCCACTTACTGA 429 405 9071 Antisense
ATAAGGGGGTCATCGAACATCGTCG 686 1 9122 Antisense
ATCGTCGATTTTTCGATTTCTTCGA 675 33 9140 Antisense
ATGTCGACTTTATCCTTTTGTCCTC 313 45 9214 Antisense
CCTCTCAACTTCTCATCGATTTTTA 470 267 9235 Antisense
GAATCAGCTCTCAAAACCTACTACA 304 327 9286 Antisense
AGAGCTTCCAGTATCATCTGATCCA 607 69 9336 Antisense
GAACCATTTGTTATCGAGTTACCCG 525 343 9394 Antisense
GACTACAGTTCGTTACATCGTCTCC 685 371 9531 Antisense
CGTCTCCGGAACTCTCGAATCAATT 592 245 9555 Antisense
GCTTTCAGCAGTTACAATTCCAATC 247 305 9594 Antisense
Sequence Source Affymetrix Proprietary Database