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[177093_at]

Description Y55F3BR.J /REP_DB=WormBase Gene ID /WP=CE26187 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59608.1
Cluster 6grp_total > 02      4grp_total > 42      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 9.3
(-3)
A 		74.7
(3)
A 		19.6
(-2.1)
A 		12.5
(-2.7)
A 		65
B 14.2
(-1.7)
A 		18.2
(2)
A 		19.3
(3)
A 		12.8
(-3)
A 		7
C 5.7
(-3)
A 		21.9
(1.5)
A 		27.2
(3)
A 		17
(0.2)
A 		22
avr 9.7
(-3) 		38.3
(3) 		22
(-0.4) 		14.1
(-2.1) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 17.3
(2.1)
A 		18.7
(3)
A 		14.9
(0.5)
A 		11.7
(-1.6)
A 		15.3
(0.8)
A 		9.6
(-3)
A 		9
B 9.8
(-0.8)
A 		14.1
(2.6)
A 		7.1
(-3)
A 		11.6
(0.6)
A 		14.6
(3)
A 		7.7
(-2.5)
A 		8
C 16.5
(3)
A 		16
(2.6)
A 		16.3
(2.8)
A 		16.5
(3)
A 		15.9
(2.5)
A 		9
(-3)
A 		8
avr 14.5
(1.6) 		16.3
(3) 		12.8
(0.2) 		13.3
(0.6) 		15.3
(2.2) 		8.8
(-3) 		8
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 3.4
(-2.3)
A 		16.2
(3)
A 		5.1
(-1.6)
A 		1.8
(-3)
A 		14
B 4.5
(3)
A 		4.5
(3)
A 		4.5
(3)
A 		2.7
(-3)
A 		2
C 1.9
(-3)
A 		6.3
(0.5)
A 		9.5
(3)
A 		2.9
(-2.2)
A 		8
avr 3.3
(-2.3) 		9
(3) 		6.4
(0.6) 		2.5
(-3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 3.2
(-1.8)
A 		6.7
(3)
A 		3.3
(-1.6)
A 		3
(-2)
A 		4.6
(0.1)
A 		2.3
(-3)
A 		4
B 3.4
(-0.6)
A 		4.7
(1.3)
A 		1.7
(-3)
A 		3.1
(-1)
A 		5.9
(3)
A 		2.9
(-1.3)
A 		4
C 6.1
(3)
A 		4.9
(0.7)
A 		4.2
(-0.7)
A 		3.3
(-2.4)
A 		5.2
(1.3)
A 		3
(-3)
A 		3
avr 4.2
(0.3) 		5.4
(3) 		3.1
(-2.1) 		3.1
(-2.1) 		5.2
(2.6) 		2.7
(-3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177093_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19380
Sequence Type Exemplar sequence
Representative Public ID Y55F3BR.J NCBI
Target Description Y55F3BR.J /REP_DB=WormBase Gene ID /WP=CE26187 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59608.1
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_001028342(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028342 NCBI Caenorhabditis elegans Y55F3BR.2b (Y55F3BR.2) mRNA, complete cds. 10/11 None
SNAP00000039571 ENSEMBL cdna:SNAP chromosome:CEL140:IV:868675:874529:1 10/11 None
GENEFINDER00000039576 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:855725:874529:1 10/11 None
Y55F3BR.2b ENSEMBL cdna:known chromosome:CEL140:IV:858930:874705:1 gene:Y55F3BR.2 10/11 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
190314 2 1 NM_001028341 177085_at (11)
NM_001028342 177093_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:855730-869319(+) 95.71 100.0
Public Domain and Genome References
Ensembl Y55F3BR.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF59608 Hypothetical protein Y55F3BR.2b [Caenorhabditis elegans] ref|NP_001023513.1| Y55F3BR.2b [Caenorhabditis elegans] 0.0
blast CAE62775 Hypothetical protein CBG06944 [Caenorhabditis briggsae] 0.0
blast CAE62776 Hypothetical protein CBG06945 [Caenorhabditis briggsae] 0.0
blast CAE68295 Hypothetical protein CBG13983 [Caenorhabditis briggsae] 0.0
blast AAF59609 Hypothetical protein Y55F3BR.2a [Caenorhabditis elegans] ref|NP_001023512.1| Y55F3BR.2a [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.1.2.Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain All alpha proteins; Globin-like; alpha-helical ferredoxin; Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain 1.29999995231628
scop a.1.2.Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain All alpha proteins; Globin-like; alpha-helical ferredoxin; Fumarate reductase/Succinate dehydogenase iron-sulfur protein, C-terminal domain 0.920000016689301
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 8.9E-24
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 4.0E-13
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.3E-15
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 1.4E-27
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.2E-20
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.1E-10
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 2.5E-9
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.6E-14
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 8.9E-24
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 2.4E-6
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.6E-14
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 4.0E-13
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.3E-15
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 1.4E-27
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.2E-20
Pfam IPR002223 EMBL-EBI Pancreatic trypsin inhibitor (Kunitz) 2.1E-10
Sequence
Target Sequence 
>C. ELEGANS:177093_AT
ttttgtatgtcggcaggctgttccctcggagataccgtatacaaggatcccaacaccaat
aagcccttcgtatgtaatactgctctacagaacaactgcccaatcaactacgactgcacc
ctgaacgccttgacccaggagcacacttgctgtggctcagacggtcagggtgtttgcccg
agcggcgagaaggcgttcatggatcctcggaccaatagcccccggcaatgtgcaatggcg
gccgatggaaagtgcccaggagggtatctgtgcagattctcccagtctaatcataagtac
tactgctgtgggaacattcagggatcgatgtgcccgtcgggaagatccttgtatcgatat
gcgactacacagctcccggtgcaatgtcatatttctccattacagtcttcttgtccaaat
gggttcgcgtgtatgagcgaggtggctggcgccttccagggatactgctgctcgcataat
cgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTGTATGTCGGCAGGCTGTTCCC 191 679 3049 Antisense
GCTGTTCCCTCGGAGATACCGTATA 292 295 3065 Antisense
ACTGCCCAATCAACTACGACTGCAC 87 99 3143 Antisense
GGAGCACACTTGCTGTGGCTCAGAC 664 519 3186 Antisense
GTGTTTGCCCGAGCGGCGAGAAGGC 262 467 3218 Antisense
TCATGGATCCTCGGACCAATAGCCC 263 621 3245 Antisense
CAATAGCCCCCGGCAATGTGCAATG 209 181 3261 Antisense
TATCTGTGCAGATTCTCCCAGTCTA 430 659 3313 Antisense
CAGCTCCCGGTGCAATGTCATATTT 192 203 3418 Antisense
TCTCCATTACAGTCTTCTTGTCCAA 334 609 3442 Antisense
GGATACTGCTGCTCGCATAATCGTG 268 511 3508 Antisense
Sequence Source Affymetrix Proprietary Database