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[175649_s_at]

Description g8886069 /REP_DB=GenBank Identifier /GB=AF159144.1 /PROTEIN_GB=AAF80368.1 /CHR=1 /FEA=Mapped Transcript /DEF=RRF-1
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 29      4grp_highest_8_8 > 44      4grp_high_8_8 > 16      6grp_highest_nonorm > 80      6grp_total > 28      4grp_total > 39      6grp_highest_sub > Cu      6grp_cgc > 02      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 219
1 2 3 4 range
A 353.5
(3)
P 		147
(-3)
P 		199.8
(-1.5)
P 		282
(0.9)
P 		207
B 365.9
(3)
P 		205.2
(-2.2)
P 		179.6
(-3)
P 		197.7
(-2.4)
P 		186
C 309.4
(3)
P 		206.8
(-3)
P 		220
(-2.2)
P 		266.6
(0.5)
P 		103
avr 342.9
(3) 		186.3
(-3) 		199.8
(-2.5) 		248.8
(-0.6) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 311
1 2 3 4 5 6 range
A 280
(2.2)
P 		253.4
(0.6)
P 		292.3
(3)
P 		203.9
(-2.5)
P 		290.5
(2.9)
P 		195.1
(-3)
P 		97
B 342.9
(3)
P 		289.8
(1.8)
P 		66.9
(-3)
P 		240.8
(0.8)
P 		247.2
(0.9)
P 		308.6
(2.3)
P 		276
C 378
(3)
P 		247.1
(-0.8)
P 		231.8
(-1.2)
P 		171
(-3)
P 		227.1
(-1.4)
P 		192.6
(-2.4)
P 		207
avr 333.6
(3) 		263.4
(-0.1) 		197
(-3) 		205.2
(-2.6) 		254.9
(-0.5) 		232.1
(-1.5) 		137
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 128.7
(3)
P 		31.9
(-3)
P 		52.2
(-1.7)
P 		41.3
(-2.4)
P 		97
B 116.7
(3)
P 		50.7
(-2.3)
P 		41.6
(-3)
P 		42.1
(-3)
P 		75
C 102.4
(3)
P 		59.5
(-1.5)
P 		76.7
(0.3)
P 		45
(-3)
P 		57
avr 115.9
(3) 		47.4
(-2.6) 		56.8
(-1.9) 		42.8
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 51.6
(-2.4)
P 		90.1
(3)
P 		63.7
(-0.7)
P 		51.7
(-2.4)
P 		87.7
(2.7)
P 		47.5
(-3)
P 		43
B 119.3
(3)
P 		96.4
(1.7)
P 		16.3
(-3)
P 		63.8
(-0.2)
P 		100.4
(1.9)
P 		115.1
(2.8)
P 		103
C 140.1
(3)
P 		75.4
(-0.7)
P 		59
(-1.6)
P 		34.4
(-3)
P 		73.5
(-0.8)
P 		64.5
(-1.3)
P 		106
avr 103.7
(3) 		87.3
(1.3) 		46.3
(-3) 		50
(-2.6) 		87.2
(1.3) 		75.7
(0.1) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175649_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19671
Sequence Type Exemplar sequence
Representative Public ID 8886069 NCBI
Target Description g8886069 /REP_DB=GenBank Identifier /GB=AF159144.1 /PROTEIN_GB=AAF80368.1 /CHR=1 /FEA=Mapped Transcript /DEF=RRF-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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(11)
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. 11/11 A 
F26A3.8 ENSEMBL cdna:known chromosome:CEL140:I:7651558:7657904:-1 gene:F26A3.8 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
chrI:7651488-7657835(-) 99.56 100.0
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:175649_S_AT
ggtgaattttaatctcgtatttttgttgaaatatgccatagactctgttaatgttttttc
ttcacttacattttcaaaccttgtactattttttctgttttatttatttttaattccttc
taccatttgtatttgtgtgtaaactgaccaattccatcatcaaatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTGAATTTTAATCTCGTATTTTTG 410 499 4817 Antisense
GAAATATGCCATAGACTCTGTTAAT 144 363 4844 Antisense
GACTCTGTTAATGTTTTTTCTTCAC 58 373 4857 Antisense
TGTTAATGTTTTTTCTTCACTTACA 577 561 4862 Antisense
TTCTTCACTTACATTTTCAAACCTT 173 687 4874 Antisense
TCAAACCTTGTACTATTTTTTCTGT 234 629 4890 Antisense
TATTTTTAATTCCTTCTACCATTTG 243 663 4921 Antisense
AATTCCTTCTACCATTTGTATTTGT 298 177 4928 Antisense
TTCTACCATTTGTATTTGTGTGTAA 494 691 4934 Antisense
TGTGTGTAAACTGACCAATTCCATC 454 553 4950 Antisense
ACTGACCAATTCCATCATCAAATGA 503 97 4959 Antisense
Sequence Source GenBank