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[184510_at]

Description K04F10.6 /REP_DB=WormBase Gene ID /WP=CE11740 /TR=O44768 /GB=AAB96748.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 86      4grp_total > 18      6grp_cgc > 58      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 18.5
(-2.7)
A 		49.7
(-0.5)
A 		13.8
(-3)
A 		100.3
(3)
A 		87
B 53.8
(-0.1)
A 		86.7
(3)
A 		22.6
(-3)
A 		70.5
(1.5)
A 		64
C 49.3
(-1.7)
A 		29.1
(-3)
A 		93
(1.2)
A 		120.6
(3)
M 		92
avr 40.5
(-3) 		55.2
(-1.4) 		43.1
(-2.7) 		97.1
(3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 627
1 2 3 4 5 6 range
A 24.7
(-3)
A 		25.9
(-3)
A 		140.4
(-1.9)
A 		162.2
(-1.6)
P 		268.2
(-0.6)
P 		635.3
(3)
P 		611
B 11.7
(-3)
A 		12.2
(-3)
A 		120.9
(-1.5)
A 		149.8
(-1.1)
P 		299.5
(1)
P 		441.6
(3)
P 		430
C 8.3
(-3)
A 		35.4
(-2.7)
A 		147.9
(-1.5)
P 		194.8
(-1)
P 		288.6
(-0)
P 		569
(3)
P 		561
avr 14.9
(-3) 		24.5
(-2.9) 		136.4
(-1.6) 		168.9
(-1.3) 		285.4
(0) 		548.6
(3) 		534
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 6.7
(-1.3)
A 		10.8
(0.9)
A 		3.6
(-3)
A 		14.7
(3)
A 		11
B 17.2
(1.4)
A 		21.4
(3)
A 		5.2
(-3)
A 		15
(0.6)
A 		16
C 16.3
(-1)
A 		8.4
(-3)
A 		32.4
(3)
A 		20.3
(-0)
M 		24
avr 13.4
(-3) 		13.5
(-2.8) 		13.7
(-2.5) 		16.7
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 187
1 2 3 4 5 6 range
A 4.5
(-3)
A 		9.2
(-2.8)
A 		30.6
(-2)
A 		41.1
(-1.5)
P 		80.9
(0.1)
P 		154.7
(3)
P 		150
B 4.1
(-3)
A 		4.1
(-3)
A 		29.4
(-2.1)
A 		39.7
(-1.7)
P 		121.7
(1.4)
P 		164.7
(3)
P 		161
C 3.1
(-3)
A 		10.8
(-2.8)
A 		37.7
(-1.9)
P 		39.2
(-1.8)
P 		93.4
(-0.1)
P 		190.5
(3)
P 		187
avr 3.9
(-3) 		8
(-2.9) 		32.6
(-2) 		40
(-1.7) 		98.7
(0.4) 		170
(3) 		166
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184510_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1976
Sequence Type Exemplar sequence
Representative Public ID K04F10.6 NCBI
Target Description K04F10.6 /REP_DB=WormBase Gene ID /WP=CE11740 /TR=O44768 /GB=AAB96748.1 /SUBMIT=ST.LOUIS /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_059433(11), NM_182080(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059433 NCBI Caenorhabditis elegans RNAi DEfective family member (rde-3) (rde-3) mRNA, complete cds. 11/11 None
NM_182080 NCBI Caenorhabditis elegans RNAi DEfective family member (rde-3) (rde-3) mRNA, complete cds. 11/11 None
SNAP00000027821 ENSEMBL cdna:SNAP chromosome:CEL140:I:6364847:6366530:-1 10/11 None
GENEFINDER00000027826 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6364847:6366530:-1 11/11 None
K04F10.6a ENSEMBL cdna:known chromosome:CEL140:I:6364745:6366530:-1 gene:K04F10.6 11/11 None
K04F10.6b ENSEMBL cdna:known chromosome:CEL140:I:6364759:6366530:-1 gene:K04F10.6 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
chrI:6364775-6366459(-) 100.0 100.0
Public Domain and Genome References
Ensembl K04F10.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB96748 Rnai defective protein 3, isoform a [Caenorhabditis elegans] ref|NP_491834.1| RNAi DEfective family member (rde-3) [Caenorhabditis elegans] 0.0
blast AAO12411 Rnai defective protein 3, isoform b [Caenorhabditis elegans] ref|NP_871880.1| RNAi DEfective family member (rde-3) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002934 EMBL-EBI DNA polymerase, beta-like region 4.5E-13
Pfam IPR002058 EMBL-EBI PAP/25A-associated domain 1.8E-20
Pfam IPR002058 EMBL-EBI PAP/25A-associated domain 3.4E-9
Pfam IPR002058 EMBL-EBI PAP/25A-associated domain 1.1E-10
Sequence
Target Sequence 
>C. ELEGANS:184510_AT
gttctactggtgattcacttcctccaatgcggtacatttccaccaatactgccaaatttg
caagaaatctttaaaaaggataatttcattgcttgggatgacaaagtctatccatcaatt
ttgaattttggtgcaccacttcccaagcctcttcctagaattgccccaaataatgctcca
ctggcaagattgttcatcgaatttctatattactactcgatgttcaacttcaaagaaaac
tacattggtgccaggcctgtaatggtcatggatcgaagaacatcacaaaacaatatggtt
cgtagttcaacaaacaaagaggtgtgtattcaagatccattcgatgagcacaacccggga
agaactgtaagaacattgaatagaattaaagatgttatgagaagcacatatcagaagttt
ctccctgtcgaaggctccgaattcacgtttcctacactagatgatattatcaatatgtca
ccagaagtgcctaaaccatcgcgtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCTACTGGTGATTCACTTCCTCC 482 441 751 Antisense
TCACTTCCTCCAATGCGGTACATTT 420 627 765 Antisense
TGCGGTACATTTCCACCAATACTGC 60 577 778 Antisense
TGAATTTTGGTGCACCACTTCCCAA 419 571 872 Antisense
TTGCCCCAAATAATGCTCCACTGGC 686 699 911 Antisense
GCTCCACTGGCAAGATTGTTCATCG 25 299 925 Antisense
GGTGCCAGGCCTGTAATGGTCATGG 438 501 997 Antisense
ATCCATTCGATGAGCACAACCCGGG 35 25 1085 Antisense
CCCTGTCGAAGGCTCCGAATTCACG 349 255 1173 Antisense
CGAATTCACGTTTCCTACACTAGAT 596 253 1188 Antisense
CAGAAGTGCCTAAACCATCGCGTGC 322 205 1232 Antisense
Sequence Source Affymetrix Proprietary Database