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[180969_s_at]

Description T04C9.1 /REP_DB=WormBase Gene ID /WP=CE26383 /TR=Q9GP90 /GB=AAG01560.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 58      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 82      6grp_total > 49      4grp_total > 46      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 300
1 2 3 4 range
A 581.8
(3)
P 		296.3
(-3)
P 		365.2
(-1.6)
P 		415.4
(-0.5)
P 		286
B 486.7
(1.8)
P 		517.2
(3)
P 		367
(-3)
P 		369.3
(-2.9)
P 		150
C 596.2
(3)
P 		479.8
(0.1)
P 		392.9
(-2)
P 		354.4
(-3)
P 		242
avr 554.9
(3) 		431.1
(-1.1) 		375
(-3) 		379.7
(-2.8) 		180

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 260.4
(-3)
P 		534.5
(1.8)
P 		344.1
(-1.5)
P 		325.2
(-1.9)
P 		290.8
(-2.5)
P 		601.8
(3)
P 		341
B 418.9
(3)
P 		335.2
(0.2)
P 		277
(-1.7)
P 		238.6
(-3)
P 		418.9
(3)
P 		409.4
(2.7)
P 		180
C 622.1
(3)
P 		301
(-1.8)
P 		460.5
(0.6)
P 		223
(-3)
P 		462.8
(0.6)
P 		446.5
(0.4)
P 		399
avr 433.8
(1.6) 		390.2
(0.4) 		360.5
(-0.4) 		262.3
(-3) 		390.8
(0.4) 		485.9
(3) 		224
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 211.8
(3)
P 		64.3
(-2.9)
P 		95.5
(-1.6)
P 		60.8
(-3)
P 		151
B 155.2
(3)
P 		127.7
(0.8)
P 		85
(-2.5)
P 		78.7
(-3)
P 		77
C 197.4
(3)
P 		137.9
(0.4)
P 		136.9
(0.4)
P 		59.8
(-3)
P 		138
avr 188.1
(3) 		110
(-0.9) 		105.8
(-1.1) 		66.4
(-3) 		122

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 186
1 2 3 4 5 6 range
A 48
(-3)
P 		190.1
(3)
P 		74.9
(-1.9)
P 		82.5
(-1.5)
P 		87.8
(-1.3)
P 		146.5
(1.2)
P 		142
B 145.8
(1.6)
P 		111.6
(-0.3)
P 		67.3
(-2.8)
P 		63.2
(-3)
P 		170.2
(3)
P 		152.7
(2)
P 		107
C 230.6
(3)
P 		91.8
(-1.5)
P 		117.2
(-0.7)
P 		44.8
(-3)
P 		149.8
(0.4)
P 		149.5
(0.4)
P 		186
avr 141.5
(2.4) 		131.2
(1.7) 		86.5
(-1.4) 		63.5
(-3) 		135.9
(2) 		149.6
(3) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180969_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7757
Sequence Type Exemplar sequence
Representative Public ID T04C9.1 NCBI
Target Description T04C9.1 /REP_DB=WormBase Gene ID /WP=CE26383 /TR=Q9GP90 /GB=AAG01560.1 /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_171143(11), NM_171870(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171143 NCBI Caenorhabditis elegans T04C9.1a (T04C9.1) mRNA, complete cds. 11/11 None
NM_171870 NCBI Caenorhabditis elegans T04C9.1b (T04C9.1) mRNA, complete cds. 11/11 None
SNAP00000038055 ENSEMBL cdna:SNAP chromosome:CEL140:III:6002661:6005697:1 11/11 None
GENEFINDER00000038069 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6002661:6005838:1 11/11 None
T04C9.1a ENSEMBL cdna:known chromosome:CEL140:III:5993159:6006302:1 gene:T04C9.1 11/11 A 
T04C9.1b ENSEMBL cdna:known chromosome:CEL140:III:5993216:6005697:1 gene:T04C9.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_065905 4/11 Cross Hyb Matching Probes None
T04C9.1c 4/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175849 3 2 NM_065905 180968_at (10)
NM_171143 174593_at (11), 180968_at (10), 180969_s_at (11)
NM_171870 180969_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5993214-6005837(+) 100.0 100.0
Public Domain and Genome References
Ensembl T04C9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN65295 Hypothetical protein T04C9.1a [Caenorhabditis elegans] ref|NP_741163.2| T04C9.1a [Caenorhabditis elegans] 0.0
blast AAN65296 Hypothetical protein T04C9.1b [Caenorhabditis elegans] ref|NP_741164.2| T04C9.1b [Caenorhabditis elegans] 0.0
blast CAE64342 Hypothetical protein CBG09025 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Pfam IPR001849 EMBL-EBI Pleckstrin-like 1.5E-8
Pfam IPR000198 EMBL-EBI RhoGAP domain 2.1E-41
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Pfam IPR000198 EMBL-EBI RhoGAP domain 2.1E-41
Pfam IPR001452 EMBL-EBI SH3 1.1E-15
Sequence
Target Sequence 
>C. ELEGANS:180969_S_AT
cggattcctgctgactcatcaaaattgacttcatccatatcatgcaccacagtcgactca
accggcgtcgtcgagacttcattcacatcgctgacacggcaaaactatctacgtggcacg
ttggactcatcatcgatgggaacgacgtataagtatttaaggtatccaaaattccgacgc
gtaaaaacactgtacgcctgcacgccggatcatcattcagagctttcatttgagcccggt
caaattattacaaacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGATTCCTGCTGACTCATCAAAAT 639 243 2323 Antisense
TGACTTCATCCATATCATGCACCAC 333 571 2348 Antisense
GCGTCGTCGAGACTTCATTCACATC 683 291 2387 Antisense
CGAGACTTCATTCACATCGCTGACA 299 251 2394 Antisense
ACATCGCTGACACGGCAAAACTATC 410 105 2407 Antisense
CGGCAAAACTATCTACGTGGCACGT 236 241 2419 Antisense
GCACGTTGGACTCATCATCGATGGG 709 315 2438 Antisense
CGTAAAAACACTGTACGCCTGCACG 548 245 2502 Antisense
CACGCCGGATCATCATTCAGAGCTT 219 199 2523 Antisense
CATTCAGAGCTTTCATTTGAGCCCG 694 215 2536 Antisense
GAGCCCGGTCAAATTATTACAAACG 71 385 2554 Antisense
Sequence Source Affymetrix Proprietary Database