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[172988_s_at]

Description C54088_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C54088 /DEF=C.elegans cDNA clone yk419h1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 04      4grp_highest_8_8 > 42      4grp_high_8_8 > 40      6grp_highest_nonorm > 61      6grp_total > 15      4grp_total > 55      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 275
1 2 3 4 range
A 655.5
(3)
P 		452.3
(-1.8)
P 		484.9
(-1.1)
P 		402.9
(-3)
P 		253
B 644
(3)
P 		401
(-2.5)
P 		477.7
(-0.8)
P 		380.5
(-3)
P 		264
C 632.9
(3)
P 		446.7
(-1.6)
P 		435.8
(-1.8)
P 		388.6
(-3)
P 		244
avr 644.1
(3) 		433.3
(-2) 		466.1
(-1.2) 		390.7
(-3) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 304
1 2 3 4 5 6 range
A 463.9
(0.3)
P 		495
(1.7)
P 		526.1
(3)
P 		408.7
(-2.1)
P 		387
(-3)
P 		419.8
(-1.6)
P 		139
B 620
(3)
P 		460.3
(-0.6)
P 		416.4
(-1.5)
P 		399
(-1.9)
P 		398.2
(-1.9)
P 		350.6
(-3)
P 		269
C 584.7
(3)
P 		553.6
(2.3)
P 		497.4
(1.1)
P 		315.7
(-3)
P 		468.1
(0.4)
P 		320
(-2.9)
P 		269
avr 556.2
(3) 		503
(1.3) 		480
(0.6) 		374.5
(-2.7) 		417.8
(-1.3) 		363.5
(-3) 		193
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 180
1 2 3 4 range
A 238.7
(3)
P 		98.2
(-1.7)
P 		126.8
(-0.7)
P 		59
(-3)
P 		180
B 205.4
(3)
P 		99
(-2.1)
P 		110.7
(-1.6)
P 		81.1
(-3)
P 		124
C 209.5
(3)
P 		128.4
(-0.4)
P 		151.9
(0.6)
P 		65.5
(-3)
P 		144
avr 217.9
(3) 		108.5
(-1.4) 		129.8
(-0.5) 		68.5
(-3) 		149

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 85.5
(-3)
P 		176.1
(3)
P 		114.6
(-1.1)
P 		103.7
(-1.8)
P 		116.8
(-0.9)
P 		102.2
(-1.9)
P 		91
B 215.7
(3)
P 		153.2
(-0.3)
P 		101.1
(-3)
P 		105.7
(-2.8)
P 		161.8
(0.2)
P 		130.7
(-1.5)
P 		115
C 216.7
(3)
P 		168.9
(1.1)
P 		126.6
(-0.5)
P 		63.5
(-3)
P 		151.5
(0.4)
P 		107.1
(-1.3)
P 		153
avr 172.6
(3) 		166.1
(2.5) 		114.1
(-1.3) 		91
(-3) 		143.4
(0.9) 		113.3
(-1.4) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172988_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26509
Sequence Type Exemplar sequence
Representative Public ID C54088 NCBI
Target Description C54088_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C54088 /DEF=C.elegans cDNA clone yk419h1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_061356(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061356 NCBI Caenorhabditis elegans C09E8.1a (C09E8.1) mRNA, complete cds. 11/11 A 
SNAP00000029458 ENSEMBL cdna:SNAP chromosome:CEL140:II:561832:563973:1 11/11 None
GENEFINDER00000029476 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:561579:563973:1 11/11 None
C09E8.1b ENSEMBL cdna:known chromosome:CEL140:II:556483:564090:1 gene:C09E8.1 9/11 None
C09E8.1a ENSEMBL cdna:known chromosome:CEL140:II:556550:564122:1 gene:C09E8.1 11/11 A 
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
173447 2 1 NM_061356 172988_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:563197-564042(+) 100.0 100.0
Public Domain and Genome References
Ensembl C09E8.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC26255 Hypothetical protein C09E8.1a [Caenorhabditis elegans] ref|NP_493757.2| C09E8.1a [Caenorhabditis elegans] 0.0
blast AAN60534 Hypothetical protein C09E8.1b [Caenorhabditis elegans] ref|NP_872021.1| C09E8.1b [Caenorhabditis elegans] 0.0
blast CAE62884 Hypothetical protein CBG07071 [Caenorhabditis briggsae] 0.0
blast AAC26255 Hypothetical protein C09E8.1a [Caenorhabditis elegans] ref|NP_493757.2| C09E8.1a [Caenorhabditis elegans] 1.0E-149
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493757.2 14 7-26,31-53,181-203,218-240,297-319,369-391,404-422,437-454,487-509,534-556,609-631,646-663,680-702,712-734
C09E8.1b 14 7-26,31-53,181-203,218-240,297-319,369-391,404-422,437-454,487-509,534-556,609-631,646-663,680-702,707-729
C09E8.1a 14 7-26,31-53,181-203,218-240,297-319,369-391,404-422,437-454,487-509,534-556,609-631,646-663,680-702,712-734
SNAP00000029458 5 36-58,111-133,148-165,182-204,214-236
GENEFINDER00000029476 5 44-66,119-141,156-173,190-212,222-244
Sequence
Target Sequence 
>C. ELEGANS:172988_S_AT
attatgtgcaatacgtggatccgaagttgctgtattgtaacagcaatagccattcgtgct
cattctgtggagcacaataggccgtcaaatacgcgagaagcctcggaagtggacgaggct
gagttgccacgtggtgccggtgatgataacggagatgatacggacgatgattctccagtg
atttttgatttggctcgagttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTATGTGCAATACGTGGATCCGAA 398 13 40 Antisense
GTGGATCCGAAGTTGCTGTATTGTA 11 491 54 Antisense
GTAACAGCAATAGCCATTCGTGCTC 469 461 76 Antisense
TAGCCATTCGTGCTCATTCTGTGGA 313 651 86 Antisense
TCTGTGGAGCACAATAGGCCGTCAA 373 603 103 Antisense
GGCCGTCAAATACGCGAGAAGCCTC 249 543 119 Antisense
GCGAGAAGCCTCGGAAGTGGACGAG 460 287 132 Antisense
TGGACGAGGCTGAGTTGCCACGTGG 529 545 149 Antisense
TTGCCACGTGGTGCCGGTGATGATA 385 701 163 Antisense
GATACGGACGATGATTCTCCAGTGA 702 421 196 Antisense
GTGATTTTTGATTTGGCTCGAGTTT 389 485 217 Antisense
Sequence Source Affymetrix Proprietary Database