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[190103_at]

Description C18A3.5 /REP_DB=WormBase Gene ID /WP=CE01797 /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding protein (ST.LOUIS) TR:Q09959 protein_id:AAA68369.1
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 65      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 77      6grp_total > 45      4grp_total > 59      6grp_highest_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1258
1 2 3 4 range
A 1306.7
(1.2)
P 		1241.6
(0.7)
P 		1554.9
(3)
P 		744.1
(-3)
P 		811
B 1281.6
(-0.7)
P 		1413
(0.3)
P 		1753.7
(3)
P 		992.4
(-3)
P 		761
C 1395.7
(-0.1)
P 		1607.6
(1)
P 		2002.5
(3)
P 		827.1
(-3)
P 		1175
avr 1328
(0.1) 		1420.7
(0.7) 		1770.4
(3) 		854.5
(-3) 		916

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 805
1 2 3 4 5 6 range
A 1101.6
(-3)
P 		1570.1
(2.7)
P 		1299.8
(-0.6)
P 		1248.4
(-1.2)
P 		1398.9
(0.6)
P 		1596.8
(3)
P 		495
B 1286.7
(-3)
P 		1406.9
(-0.9)
P 		1636.6
(3)
P 		1386.9
(-1.3)
P 		1301
(-2.8)
P 		1490.3
(0.5)
P 		350
C 1906.5
(3)
P 		1280.7
(-1.9)
P 		1538.6
(0.1)
P 		1133.8
(-3)
P 		1237.9
(-2.2)
P 		1582.1
(0.5)
P 		773
avr 1431.6
(0.5) 		1419.2
(0.3) 		1491.7
(1.7) 		1256.4
(-3) 		1312.6
(-1.9) 		1556.4
(3) 		300
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 589
1 2 3 4 range
A 475.8
(3)
P 		269.5
(-0.4)
P 		406.5
(1.9)
P 		108.9
(-3)
P 		367
B 408.7
(3)
P 		349
(1.2)
P 		406.4
(2.9)
P 		211.5
(-3)
P 		197
C 462
(0.5)
P 		462.2
(0.5)
P 		697.9
(3)
P 		139.5
(-3)
P 		558
avr 448.8
(2.1) 		360.2
(0.5) 		503.6
(3) 		153.3
(-3) 		350

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 504
1 2 3 4 5 6 range
A 203.1
(-3)
P 		558.4
(3)
P 		283.1
(-1.6)
P 		316.6
(-1.1)
P 		422.1
(0.7)
P 		388.8
(0.1)
P 		355
B 447.7
(-0.4)
P 		468.3
(0.2)
P 		397.4
(-2)
P 		367.3
(-3)
P 		528.6
(2.1)
P 		555.7
(3)
P 		188
C 706.6
(3)
P 		390.8
(-1)
P 		391.6
(-0.9)
P 		228
(-3)
P 		400.6
(-0.8)
P 		529.6
(0.8)
P 		479
avr 452.5
(1.8) 		472.5
(2.4) 		357.4
(-1.3) 		304
(-3) 		450.4
(1.7) 		491.4
(3) 		187
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190103_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5891
Sequence Type Exemplar sequence
Representative Public ID C18A3.5 NCBI
Target Description C18A3.5 /REP_DB=WormBase Gene ID /WP=CE01797 /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding protein (ST.LOUIS) TR:Q09959 protein_id:AAA68369.1
Cluster Evidence This cluster is supported by a 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_182180(11), NM_062719(11), NM_062720(11), NM_062722(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
NM_062719 NCBI Caenorhabditis elegans C18A3.5b (C18A3.5) mRNA, complete cds. 11/11 None
NM_062720 NCBI Caenorhabditis elegans C18A3.5a (C18A3.5) mRNA, complete cds. 11/11 None
NM_062722 NCBI Caenorhabditis elegans C18A3.5e (C18A3.5) mRNA, complete cds. 11/11 None
SNAP00000023263 ENSEMBL cdna:SNAP chromosome:CEL140:II:5712806:5714771:-1 11/11 None
GENEFINDER00000023272 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5712806:5714771:-1 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
C18A3.5b ENSEMBL cdna:known chromosome:CEL140:II:5712806:5714771:-1 gene:C18A3.5 11/11 None
C18A3.5a ENSEMBL cdna:known chromosome:CEL140:II:5712806:5714771:-1 gene:C18A3.5 11/11 None
C18A3.5e ENSEMBL cdna:known chromosome:CEL140:II:5712806:5714054:-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 4 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:5712802-5714768(-) 100.0 100.0
Public Domain and Genome References
Ensembl C18A3.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68191 Hypothetical protein C18A3.5a [Caenorhabditis elegans] ref|NP_495121.1| C18A3.5a [Caenorhabditis elegans] 1.0E-180
blast T15542 hypothetical protein C18A3.5 - Caenorhabditis elegans 1.0E-174
blast AAK68192 Hypothetical protein C18A3.5b [Caenorhabditis elegans] ref|NP_495120.1| C18A3.5b [Caenorhabditis elegans] 1.0E-161
blast CAE59176 Hypothetical protein CBG02484 [Caenorhabditis briggsae] 1.0E-161
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) 1.4E-5
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) 2.5E-19
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) 1.9E-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:190103_AT
agaactatccgtaccaattgggctacaagaaagccaggagatcaagagaaaccaagccat
tataatgaaaagtcatacgatgagatctacaatcaaacttctggagataacacttcagtc
tacgtcggaaacattgcttcacttactgaagatgaaatccgccaaggattcgccagcttt
ggacgaattaccgaagtccgcattttcaagatgcaaggatatgcatttgtgaagtttgac
aacaaagatgccgctgcaaaggctattgtccagatgaacaaccaagatgtcggaggacag
cttgttagatgtagctggggaaaaactggagacactggaaaaactcctggaggatcttat
ggttacggttatggaaactcatcgtctggaggaaactcacagccgtactctggatatggt
ggtggcggagcttacggaggtggtcaaggaggaggaggccatggaggacctggacaacag
caatccaatgccaacagtcagtattggcaatactacgcccaatactacaataatcctcaa
ctcatgcaacaatggtccaactactggcagcaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAACTATCCGTACCAATTGGGCTA 152 73 742 Antisense
GATAACACTTCAGTCTACGTCGGAA 58 423 847 Antisense
ACGTCGGAAACATTGCTTCACTTAC 405 93 863 Antisense
GCCAAGGATTCGCCAGCTTTGGACG 196 277 902 Antisense
GAATTACCGAAGTCCGCATTTTCAA 135 325 926 Antisense
GCCGCTGCAAAGGCTATTGTCCAGA 203 283 991 Antisense
AACTCACAGCCGTACTCTGGATATG 201 141 1135 Antisense
GGAGGCCATGGAGGACCTGGACAAC 517 513 1195 Antisense
CAATACTACGCCCAATACTACAATA 427 173 1249 Antisense
ACTACAATAATCCTCAACTCATGCA 477 101 1265 Antisense
AATGGTCCAACTACTGGCAGCAACA 660 161 1292 Antisense
Sequence Source Affymetrix Proprietary Database