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[187366_s_at]

Description R05D3.4 /REP_DB=WormBase Gene ID /WP=CE00283 /TR=SW:P34537 /GB=AAK21443.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 37      6grp_total > 27      4grp_total > 47      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 424
1 2 3 4 range
A 670
(3)
P 		393.4
(-2.3)
M 		354.2
(-3)
M 		357.3
(-2.9)
P 		316
B 729.6
(3)
P 		355.3
(-2.6)
A 		327.7
(-3)
P 		448.9
(-1.2)
P 		402
C 695.5
(3)
P 		305.3
(-3)
M 		382.1
(-1.8)
P 		382.4
(-1.8)
P 		390
avr 698.4
(3) 		351.3
(-3) 		354.7
(-2.9) 		396.2
(-2.2) 		347

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 317
1 2 3 4 5 6 range
A 531.3
(3)
P 		429
(0.5)
P 		333.4
(-1.8)
P 		348.4
(-1.5)
P 		286.4
(-3)
P 		362.3
(-1.1)
P 		245
B 603.5
(3)
P 		428.6
(-0.3)
P 		409.4
(-0.7)
P 		286.9
(-3)
P 		402.8
(-0.8)
P 		486.7
(0.8)
P 		317
C 547.9
(3)
P 		443.3
(0.3)
P 		389.6
(-1.1)
P 		314.4
(-3)
A 		364
(-1.7)
P 		485.4
(1.4)
P 		234
avr 560.9
(3) 		433.6
(-0.1) 		377.5
(-1.5) 		316.6
(-3) 		351.1
(-2.2) 		444.8
(0.1) 		244
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 244
(3)
P 		85.4
(-2)
M 		92.6
(-1.7)
M 		52.3
(-3)
P 		192
B 232.7
(3)
P 		87.8
(-2.5)
A 		75.9
(-3)
P 		95.7
(-2.2)
P 		157
C 230.2
(3)
P 		87.8
(-2.2)
M 		133.2
(-0.5)
P 		64.5
(-3)
P 		166
avr 235.6
(3) 		87
(-2.4) 		100.6
(-1.9) 		70.8
(-3) 		165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 147
1 2 3 4 5 6 range
A 97.9
(-1.1)
P 		152.6
(3)
P 		72.6
(-3)
P 		88.4
(-1.8)
P 		86.4
(-2)
P 		88.2
(-1.8)
P 		80
B 210
(3)
P 		142.7
(-0)
P 		99.4
(-2)
P 		76
(-3)
P 		163.7
(0.9)
P 		181.5
(1.7)
P 		134
C 203.1
(3)
P 		135.3
(0.1)
P 		99.2
(-1.5)
P 		63.2
(-3)
A 		117.8
(-0.7)
P 		162.5
(1.3)
P 		140
avr 170.3
(3) 		143.5
(1.3) 		90.4
(-2.1) 		75.9
(-3) 		122.6
(-0) 		144.1
(1.3) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187366_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6958
Sequence Type Exemplar sequence
Representative Public ID R05D3.4 NCBI
Target Description R05D3.4 /REP_DB=WormBase Gene ID /WP=CE00283 /TR=SW:P34537 /GB=AAK21443.1 /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_001027528(11), NM_001027529(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027528 NCBI Caenorhabditis elegans Ring Finger Protein, UBC associated family member (rfp-1) (rfp-1) mRNA, complete cds. 11/11 None
NM_001027529 NCBI Caenorhabditis elegans Ring Finger Protein, UBC associated family member (rfp-1) (rfp-1) mRNA, complete cds. 11/11 None
GENEFINDER00000035993 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8358542:8362132:1 9/11 None
SNAP00000035977 ENSEMBL cdna:SNAP chromosome:CEL140:III:8358545:8362003:1 11/11 None
R05D3.4a ENSEMBL cdna:known chromosome:CEL140:III:8358540:8362406:1 gene:R05D3.4 11/11 None
R05D3.4b ENSEMBL cdna:known chromosome:CEL140:III:8358542:8362003:1 gene:R05D3.4 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
chrIII:8358537-8361999(+) 100.0 100.0
Public Domain and Genome References
Ensembl R05D3.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK21443 Temporarily assigned gene name protein 84, isoform a [Caenorhabditis elegans] ref|NP_001022699.1| Ring Finger Protein, UBC associated family member (rfp-1) [Caenorhabditis elegans] sp|P34537|RFP1_CAEEL RING finger protein rfp-1 0.0
blast AAU20841 Temporarily assigned gene name protein 84, isoform b [Caenorhabditis elegans] ref|NP_001022700.1| Ring Finger Protein, UBC associated family member (rfp-1) [Caenorhabditis elegans] 0.0
blast CAE71279 Hypothetical protein CBG18162 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-5
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.1E-12
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.1E-12
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.1E-12
Sequence
Target Sequence 
>C. ELEGANS:187366_S_AT
atcagttcagttcaaatctgccgaattaacacgtctcacaaacttgatggaacaacatag
aaagaacattcaagaagttggaatgtcacgagacgaaaaccaaattaaagcggatcgatg
tgaaggtcaaatgaagcaaattcaagaattatacgctgccaaggcacgtgaaatcgaaga
ttttaaattcaagagacaacgtgctgaagaggaacttgagacgcttcgaattaaatatga
acgagtaaaacgaaatgagtctgtaccggctcaaagtggtgatcaagtcctcgaggaagc
gaatcgacaaatgaaagaaacactgacttgtccatcatgtaaaacgaggccaaaggattg
tattatgctcaaatgctatcatttattctgtgaaacttgcattaagactatgtacgacac
tcgtcaacggaaatgcccga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCAGTTCAGTTCAAATCTGCCGAA 612 27 2028 Antisense
TTCAAGAATTATACGCTGCCAAGGC 502 685 2168 Antisense
CGCTGCCAAGGCACGTGAAATCGAA 94 255 2181 Antisense
GAGACAACGTGCTGAAGAGGAACTT 186 393 2220 Antisense
GAGGAACTTGAGACGCTTCGAATTA 120 403 2236 Antisense
GAGTCTGTACCGGCTCAAAGTGGTG 702 399 2284 Antisense
AAGTGGTGATCAAGTCCTCGAGGAA 513 159 2301 Antisense
GAAACACTGACTTGTCCATCATGTA 531 355 2344 Antisense
TGTCCATCATGTAAAACGAGGCCAA 6 557 2356 Antisense
GACTATGTACGACACTCGTCAACGG 302 359 2433 Antisense
GACACTCGTCAACGGAAATGCCCGA 272 367 2443 Antisense
Sequence Source Affymetrix Proprietary Database