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[187521_at]

Description R05D3.8 /REP_DB=WormBase Gene ID /WP=CE00287 /TR=SW:P34541 /GB=AAK21440.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 75      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 73      6grp_total > 75      4grp_total > 14      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 265
1 2 3 4 range
A 438.5
(-0.8)
P 		380.4
(-2.2)
P 		350.9
(-3)
P 		585.3
(3)
P 		234
B 411
(3)
P 		339.2
(-2.4)
P 		331.4
(-3)
P 		398.5
(2.1)
P 		80
C 467.6
(3)
P 		320.5
(-3)
P 		342.1
(-2.1)
P 		450.7
(2.3)
P 		147
avr 439
(1.3) 		346.7
(-2.8) 		341.5
(-3) 		478.2
(3) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 353
1 2 3 4 5 6 range
A 435.9
(-2.3)
P 		478.6
(-1.5)
P 		404
(-3)
P 		561.1
(0.3)
P 		461.6
(-1.8)
P 		693.3
(3)
P 		289
B 445.9
(-2.2)
P 		447
(-2.1)
P 		460.3
(-1.7)
P 		460.1
(-1.7)
P 		421
(-3)
P 		597.4
(3)
P 		176
C 340.7
(-3)
P 		410
(-1.8)
P 		567.2
(1)
P 		678.1
(3)
P 		427.8
(-1.5)
P 		562.3
(0.9)
P 		337
avr 407.5
(-3) 		445.2
(-1.9) 		477.2
(-1) 		566.4
(1.5) 		436.8
(-2.2) 		617.7
(3) 		210
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 159.7
(3)
P 		82.6
(-3)
P 		91.7
(-2.3)
P 		85.7
(-2.8)
P 		77
B 131.1
(3)
P 		83.8
(-2.2)
P 		76.8
(-3)
P 		84.9
(-2.1)
P 		54
C 154.8
(3)
P 		92.2
(-1.8)
P 		119.2
(0.3)
P 		76
(-3)
P 		79
avr 148.5
(3) 		86.2
(-2.6) 		95.9
(-1.8) 		82.2
(-3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 80.4
(-3)
P 		170.2
(3)
P 		88
(-2.5)
P 		142.3
(1.1)
P 		139.3
(0.9)
P 		168.8
(2.9)
P 		90
B 155.1
(-0.7)
P 		148.8
(-1)
P 		111.8
(-3)
P 		121.9
(-2.5)
P 		171.1
(0.2)
P 		222.8
(3)
P 		111
C 126.3
(-2.9)
P 		125.1
(-3)
P 		144.4
(-1.2)
P 		136.4
(-1.9)
P 		138.4
(-1.7)
P 		188.2
(3)
P 		63
avr 120.6
(-2.5) 		148
(-0.5) 		114.7
(-3) 		133.5
(-1.6) 		149.6
(-0.3) 		193.3
(3) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187521_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6857
Sequence Type Exemplar sequence
Representative Public ID R05D3.8 NCBI
Target Description R05D3.8 /REP_DB=WormBase Gene ID /WP=CE00287 /TR=SW:P34541 /GB=AAK21440.1 /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_066442(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066442 NCBI Caenorhabditis elegans R05D3.8 (R05D3.8) mRNA, complete cds. 11/11 None
GENEFINDER00000035985 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8355203:8358179:-1 11/11 None
SNAP00000035976 ENSEMBL cdna:SNAP chromosome:CEL140:III:8356902:8358179:-1 11/11 None
R05D3.8 ENSEMBL cdna:known chromosome:CEL140:III:8356834:8357723:-1 gene:R05D3.8 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:8356897-8357557(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R05D3.8
Entrez Gene 187602 Entrez gene
SwissProt P34541 EMBL-EBI
WormBase CE00287 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK21440 Hypothetical protein R05D3.8 [Caenorhabditis elegans] ref|NP_498843.1| R05D3.8 [Caenorhabditis elegans] sp|P34541|YNC8_CAEEL Hypothetical protein R05D3.8 in chromosome III 8.0E-73
blast AAK21440 Hypothetical protein R05D3.8 [Caenorhabditis elegans] ref|NP_498843.1| R05D3.8 [Caenorhabditis elegans] sp|P34541|YNC8_CAEEL Hypothetical protein R05D3.8 in chromosome III 5.0E-72
blast AAK21440 Hypothetical protein R05D3.8 [Caenorhabditis elegans] ref|NP_498843.1| R05D3.8 [Caenorhabditis elegans] sp|P34541|YNC8_CAEEL Hypothetical protein R05D3.8 in chromosome III 1.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 8.3E-5
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 9.1E-5
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 8.3E-5
Sequence
Target Sequence 
>C. ELEGANS:187521_AT
gtcagtgattcagaagggccgcttcacttctgcattataactttcgcagactccagatct
gttgatgttcttctaaccaagtcaatatacatcagggatgttctgatgttcacccgacgt
gctgtattgaaggagtccgttaaaatagcggaacataagataaaagagcaggaacaacaa
aacctcgtgcaactacctccaaatcacactgcttatctaacgccgtcacgtcccgtaact
tctgtacatgcctcatcatctgcttcatcaaatcactatgatccatctgcagcagcagga
tatgcaccactatatcatcaaccaccagaatcagatccattgtct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCAGTGATTCAGAAGGGCCGCTTC 20 467 55 Antisense
CCGCTTCACTTCTGCATTATAACTT 470 263 73 Antisense
TTATAACTTTCGCAGACTCCAGATC 226 679 89 Antisense
GACTCCAGATCTGTTGATGTTCTTC 262 375 103 Antisense
AGGGATGTTCTGATGTTCACCCGAC 41 59 148 Antisense
GTTCACCCGACGTGCTGTATTGAAG 196 443 162 Antisense
TCGTGCAACTACCTCCAAATCACAC 680 605 239 Antisense
CAAATCACACTGCTTATCTAACGCC 477 193 254 Antisense
GCAGCAGCAGGATATGCACCACTAT 187 313 343 Antisense
ACCACTATATCATCAACCACCAGAA 337 83 360 Antisense
ACCACCAGAATCAGATCCATTGTCT 647 85 375 Antisense
Sequence Source Affymetrix Proprietary Database