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[174945_at]

Description CEK116C9R_rc /REP_DB=TREMBL Accession /GB=D73257 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk116c9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 19      4grp_high_8_8 > 63      6grp_highest_nonorm > 83      6grp_total > 88      4grp_total > 56      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 398
(-1.5)
P 		378.9
(-2.3)
P 		501.9
(3)
P 		362.4
(-3)
P 		140
B 413.9
(-1.7)
P 		399.2
(-2.8)
P 		477.3
(3)
P 		396.1
(-3)
P 		81
C 368.1
(-2.4)
P 		343.9
(-3)
P 		575.1
(3)
P 		363.3
(-2.5)
P 		231
avr 393.3
(-2.2) 		374
(-3) 		518.1
(3) 		373.9
(-3) 		144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 393
1 2 3 4 5 6 range
A 248.7
(-3)
P 		473.6
(0.4)
P 		361.8
(-1.3)
P 		347.2
(-1.5)
P 		560.3
(1.8)
P 		641
(3)
P 		392
B 440.1
(-1.5)
P 		467.8
(-0.6)
P 		487.5
(0.1)
P 		500.2
(0.5)
P 		394.2
(-3)
P 		575.8
(3)
P 		182
C 603.3
(2.2)
P 		348.1
(-3)
P 		397.1
(-2)
P 		398.6
(-2)
P 		616.8
(2.5)
P 		641.6
(3)
P 		294
avr 430.7
(-2.5) 		429.8
(-2.6) 		415.5
(-3) 		415.3
(-3) 		523.8
(0.2) 		619.5
(3) 		204
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 147
1 2 3 4 range
A 144.9
(3)
P 		82.3
(-1.1)
P 		131.2
(2.1)
P 		53
(-3)
P 		92
B 132
(3)
P 		98.6
(-1.2)
P 		110.6
(0.3)
P 		84.4
(-3)
P 		48
C 121.9
(-0.4)
P 		98.9
(-1.4)
P 		200.4
(3)
P 		61.3
(-3)
P 		139
avr 132.9
(1.9) 		93.3
(-1) 		147.4
(3) 		66.2
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 45.8
(-3)
P 		168.4
(3)
P 		78.8
(-1.4)
P 		88
(-0.9)
P 		169.1
(3)
P 		156.1
(2.4)
P 		123
B 153.1
(-0.8)
P 		155.7
(-0.7)
P 		118.4
(-3)
P 		132.5
(-2.1)
P 		160.2
(-0.4)
P 		214.7
(3)
P 		96
C 223.6
(3)
P 		106.2
(-1.9)
P 		101.1
(-2.1)
P 		80.2
(-3)
P 		199.6
(2)
P 		214.8
(2.6)
P 		143
avr 140.8
(-0.4) 		143.4
(-0.2) 		99.4
(-3) 		100.2
(-2.9) 		176.3
(1.8) 		195.2
(3) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174945_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20871
Sequence Type Exemplar sequence
Representative Public ID CEK116C9R NCBI
Target Description CEK116C9R_rc /REP_DB=TREMBL Accession /GB=D73257 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk116c9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_182180(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182180 NCBI Caenorhabditis elegans C18A3.5f (C18A3.5) mRNA, complete cds. 11/11 None
C18A3.5f.1 ENSEMBL cdna:known chromosome:CEL140:II:5712326:5714789:-1 gene:C18A3.5 11/11 A 
C18A3.5f.2 ENSEMBL cdna:known chromosome:CEL140:II:5712326:5714789:-1 gene:C18A3.5 11/11 A 
C18A3.5f.3 ENSEMBL cdna:known chromosome:CEL140:II:5712326:5714789:-1 gene:C18A3.5 11/11 A 
C18A3.5f.4 ENSEMBL cdna:known chromosome:CEL140:II:5712333:5714789:-1 gene:C18A3.5 11/11 A 
C18A3.5c ENSEMBL cdna:known chromosome:CEL140:II:5712339:5714789:-1 gene:C18A3.5 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173967 5 1 NM_062719 190103_at (11)
NM_062720 190103_at (11)
NM_062722 190103_at (11)
NM_182180 174945_at (11), 190103_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:5712339-5712686(-) 100.0 100.0
Public Domain and Genome References
Ensembl C18A3.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN63456 Hypothetical protein C18A3.5e [Caenorhabditis elegans] ref|NP_495123.2| C18A3.5e [Caenorhabditis elegans] 1.0E-111
blast AAK68191 Hypothetical protein C18A3.5a [Caenorhabditis elegans] ref|NP_495121.1| C18A3.5a [Caenorhabditis elegans] 1.0E-111
blast AAK68192 Hypothetical protein C18A3.5b [Caenorhabditis elegans] ref|NP_495120.1| C18A3.5b [Caenorhabditis elegans] 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.9E-27
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.1E-17
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-5
Sequence
Target Sequence 
>C. ELEGANS:174945_AT
gcattctaacgcacttttctatttatgatttcctttttttctatgtatttgttataatac
ttcccttctgaaacaatctgttgatcttttgacaatcattatatcaaatttttttctgtt
tttttatttgcttccattacgtgtccattccccacccacaccacttcatcacctaatcaa
tatgtctagattcaaaaagaaaaaatgcacacaagcaaacccctaaattacactggtaga
ttacaatgtttcgttttcttaattttgcaatggcacgtattcttatctggttctgtctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATTCTAACGCACTTTTCTATTTA 547 305 31 Antisense
CGCACTTTTCTATTTATGATTTCCT 197 255 40 Antisense
ATGATTTCCTTTTTTTCTATGTATT 232 47 55 Antisense
TCCTTTTTTTCTATGTATTTGTTAT 554 591 61 Antisense
TTTGTTATAATACTTCCCTTCTGAA 599 665 78 Antisense
TTCCCTTCTGAAACAATCTGTTGAT 219 697 91 Antisense
ACAATCTGTTGATCTTTTGACAATC 66 115 103 Antisense
CATTATATCAAATTTTTTTCTGTTT 26 217 127 Antisense
ACCTAATCAATATGTCTAGATTCAA 681 87 201 Antisense
GCAATGGCACGTATTCTTATCTGGT 710 321 297 Antisense
ACGTATTCTTATCTGGTTCTGTCTT 193 95 305 Antisense
Sequence Source Affymetrix Proprietary Database