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[172617_x_at]

Description H06I04.3A /REP_DB=WormBase Gene ID /WP=CE23795 /TR=Q9N5N9 /GB=AAF39868.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 56      4grp_high_8_8 > 09      6grp_total > 47      4grp_total > 15      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 196
1 2 3 4 range
A 346
(3)
P 		186.9
(-3)
P 		258.2
(-0.3)
P 		298.4
(1.2)
P 		159
B 340.7
(3)
P 		149.6
(-3)
A 		165.3
(-2.5)
P 		316.3
(2.2)
P 		191
C 296.4
(2.5)
P 		234.4
(-3)
P 		250.6
(-1.6)
P 		302.3
(3)
P 		68
avr 327.7
(3) 		190.3
(-3) 		224.7
(-1.5) 		305.7
(2) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 174
1 2 3 4 5 6 range
A 178.3
(-0.1)
P 		194.6
(0.5)
P 		170.1
(-0.5)
P 		123.8
(-2.2)
P 		102.3
(-3)
A 		262.3
(3)
P 		160
B 168.8
(0.3)
P 		193
(1.4)
P 		142.6
(-0.8)
P 		144.4
(-0.7)
A 		90.7
(-3)
A 		231.1
(3)
P 		140
C 263
(3)
P 		145.6
(-1)
P 		144
(-1.1)
P 		88.7
(-3)
A 		113.4
(-2.1)
P 		253.3
(2.7)
P 		174
avr 203.4
(1.1) 		177.7
(0.1) 		152.2
(-1) 		119
(-2.3) 		102.1
(-3) 		248.9
(3) 		147
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 126
(3)
P 		40.6
(-3)
P 		67.5
(-1.1)
P 		43.7
(-2.8)
P 		85
B 108.6
(3)
P 		36.9
(-3)
A 		38.3
(-2.9)
P 		67.4
(-0.4)
P 		72
C 98.1
(3)
P 		67.4
(-0.9)
P 		87.4
(1.6)
P 		51
(-3)
P 		47
avr 110.9
(3) 		48.3
(-3) 		64.4
(-1.5) 		54
(-2.5) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 32.9
(-2.7)
P 		69.2
(3)
P 		37
(-2)
P 		31.4
(-2.9)
P 		30.9
(-3)
A 		63.9
(2.2)
P 		38
B 58.7
(-0.2)
P 		64.2
(0.4)
P 		34.6
(-3)
P 		38.3
(-2.6)
A 		36.9
(-2.7)
A 		86.2
(3)
P 		52
C 97.5
(3)
P 		44.4
(-1)
P 		36.6
(-1.6)
P 		17.8
(-3)
A 		36.7
(-1.6)
P 		84.8
(2)
P 		80
avr 63
(1.1) 		59.3
(0.7) 		36.1
(-2.2) 		29.2
(-3) 		34.8
(-2.3) 		78.3
(3) 		49
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172617_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6678
Sequence Type Exemplar sequence
Representative Public ID H06I04.3A NCBI
Target Description H06I04.3A /REP_DB=WormBase Gene ID /WP=CE23795 /TR=Q9N5N9 /GB=AAF39868.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065254(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065254 NCBI Caenorhabditis elegans H06I04.3a (H06I04.3) mRNA, complete cds. 11/11 A 
SNAP00000025111 ENSEMBL cdna:SNAP chromosome:CEL140:III:3070542:3085038:1 11/11 None
GENEFINDER00000025128 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3070542:3085038:1 11/11 None
H06I04.3a.2 ENSEMBL cdna:known chromosome:CEL140:III:3070508:3085038:1 gene:H06I04.3 11/11 None
H06I04.3a.1 ENSEMBL cdna:known chromosome:CEL140:III:3070513:3085246:1 gene:H06I04.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027464 7/11 Cross Hyb Matching Probes None
NM_065255 5/11 Cross Hyb Matching Probes A 
H06I04.3b 5/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175414 3 1 NM_065254 172617_x_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:3070541-3085038(+) 97.96 100.0
Public Domain and Genome References
Ensembl H06I04.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39868 Hypothetical protein H06I04.3a [Caenorhabditis elegans] ref|NP_497655.1| H06I04.3a [Caenorhabditis elegans] 0.0
blast AAX22287 Hypothetical protein H06I04.3c [Caenorhabditis elegans] ref|NP_001022635.1| H06I04.3c [Caenorhabditis elegans] 0.0
blast CAE74666 Hypothetical protein CBG22467 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002877 EMBL-EBI Ribosomal RNA methyltransferase RrmJ/FtsJ 9.4E-78
Pfam IPR002877 EMBL-EBI Ribosomal RNA methyltransferase RrmJ/FtsJ 4.6E-63
Pfam IPR002877 EMBL-EBI Ribosomal RNA methyltransferase RrmJ/FtsJ 8.8E-8
Sequence
Target Sequence 
>C. ELEGANS:172617_X_AT
gaagcgtaaattgacacccgaacagttggcaatcggtgaacaaatgatctactcagcgaa
ggcggcaaggaatttagaggatgaagcatggaatcgatatgcaaataatgatgaagatct
tcctgattggtttgctgatgatgagaagaaacattatttcaagcagacgcctgttacaaa
ggaacaagttgctctgtatagggaacgaatgagagaatttaatgcaagaccatcgaagaa
ggttgccgaggcgaaggctagaaaacagaaaaagatgcaacgtaagctggaatcggcaaa
gaaaaaagctgaaggaattcttgaaaatgatcaaatggagcactcggaaaaggttcgaga
aatgaagaaagtgtatgcaaatgcgacgagaaaggagaaaaagaaggttgaattagttcg
aatgacgaaaggaaagaagggaaaaactggacgaccaaatggacaatataagcttgtcga
tagccgtatgaagaaggacctccgtgcagcaaaagccaaagaaaagacaaaaggacgcgg
tggaaaacgtggaattccaaagaaaactggtggcggaggtggtggccgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCGTAAATTGACACCCGAACAG 473 331 1887 Antisense
GATCTACTCAGCGAAGGCGGCAAGG 231 413 1932 Antisense
GAAGATCTTCCTGATTGGTTTGCTG 266 337 1999 Antisense
TATTTCAAGCAGACGCCTGTTACAA 525 661 2041 Antisense
GAAGGTTGCCGAGGCGAAGGCTAGA 145 335 2124 Antisense
AGATGCAACGTAAGCTGGAATCGGC 401 67 2159 Antisense
AAATGATCAAATGGAGCACTCGGAA 493 117 2211 Antisense
TAAGCTTGTCGATAGCCGTATGAAG 114 637 2355 Antisense
ATGAAGAAGGACCTCCGTGCAGCAA 670 43 2374 Antisense
GACCTCCGTGCAGCAAAAGCCAAAG 374 381 2383 Antisense
AACTGGTGGCGGAGGTGGTGGCCGT 108 141 2451 Antisense
Sequence Source Affymetrix Proprietary Database