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[177085_at]

Description Y55F3BR.K /REP_DB=WormBase Gene ID /WP=CE22550 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59609.1
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 24      4grp_highest_8_8 > 03      4grp_high_8_8 > 38      6grp_highest_nonorm > 90      6grp_total > 15      4grp_total > 41      6grp_highest_sub > 01_02      6grp_high1_sub > 02      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 213
1 2 3 4 range
A 89.6
(-3)
P 		302.7
(3)
P 		229.5
(0.9)
P 		156.3
(-1.1)
P 		213
B 161.8
(-3)
P 		260.4
(1.8)
P 		284.2
(3)
P 		227.4
(0.2)
P 		122
C 127.8
(-3)
P 		220.3
(2.2)
P 		235.4
(3)
P 		231.7
(2.8)
P 		108
avr 126.4
(-3) 		261.1
(3) 		249.7
(2.5) 		205.1
(0.5) 		135

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 175.4
(3)
P 		161.2
(1.1)
P 		131.1
(-3)
P 		141.5
(-1.6)
P 		143.5
(-1.3)
P 		135.4
(-2.4)
P 		44
B 137
(1)
P 		152.3
(3)
P 		146.9
(2.3)
P 		123.5
(-0.8)
P 		106.5
(-3)
P 		132.3
(0.4)
P 		46
C 133.8
(1.2)
P 		157.9
(3)
P 		111.9
(-0.5)
P 		78
(-3)
P 		154.8
(2.8)
P 		81.2
(-2.8)
P 		80
avr 148.7
(1.8) 		157.1
(3) 		130
(-0.8) 		114.3
(-3) 		134.9
(-0.1) 		116.3
(-2.7) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 32.6
(-1.6)
P 		65.7
(3)
P 		60
(2.2)
P 		22.9
(-3)
P 		43
B 51.6
(-1.9)
P 		64.3
(2.4)
P 		65.9
(3)
P 		48.5
(-3)
P 		17
C 42.3
(-2.6)
P 		63.3
(0.4)
P 		82.1
(3)
P 		39.1
(-3)
P 		43
avr 42.2
(-2) 		64.4
(2.1) 		69.3
(3) 		36.8
(-3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 32.3
(-2.2)
P 		57.3
(3)
P 		28.6
(-3)
P 		35.9
(-1.5)
P 		43.3
(0.1)
P 		33
(-2.1)
P 		29
B 47.7
(2)
P 		50.7
(3)
P 		35.7
(-2)
P 		32.7
(-3)
P 		43.3
(0.5)
P 		49.4
(2.6)
P 		18
C 49.6
(2.9)
P 		48.2
(2.7)
P 		28.5
(-0.8)
P 		15.7
(-3)
P 		50.1
(3)
P 		27.2
(-1)
P 		34
avr 43.2
(0.8) 		52.1
(3) 		30.9
(-2.3) 		28.1
(-3) 		45.6
(1.4) 		36.5
(-0.9) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177085_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19213
Sequence Type Exemplar sequence
Representative Public ID Y55F3BR.K NCBI
Target Description Y55F3BR.K /REP_DB=WormBase Gene ID /WP=CE22550 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59609.1
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_001028341(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028341 NCBI Caenorhabditis elegans Y55F3BR.2a (Y55F3BR.2) mRNA, complete cds. 11/11 None
SNAP00000039571 ENSEMBL cdna:SNAP chromosome:CEL140:IV:868675:874529:1 11/11 None
GENEFINDER00000039576 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:855725:874529:1 11/11 None
Y55F3BR.2a ENSEMBL cdna:known chromosome:CEL140:IV:870073:874529:1 gene:Y55F3BR.2 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
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:870078-874535(+) 94.27 100.0
Public Domain and Genome References
Ensembl Y55F3BR.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF59609 Hypothetical protein Y55F3BR.2a [Caenorhabditis elegans] ref|NP_001023512.1| Y55F3BR.2a [Caenorhabditis elegans] 0.0
blast CAE68295 Hypothetical protein CBG13983 [Caenorhabditis briggsae] 0.0
blast AAF59608 Hypothetical protein Y55F3BR.2b [Caenorhabditis elegans] ref|NP_001023513.1| Y55F3BR.2b [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 0.920000016689301
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 2.4E-6
Pfam IPR006149 EMBL-EBI Nematode-specific EB region 3.6E-14
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:177085_AT
gctgtggtcctaaaaattcgccgaaaaacgctacggaaaagcccacagagcccccaacaa
ctcaagcttcaactacagttggagccataattgtgacaaagaagtccaagccgataaaag
ttccggcccagcattgcccggctcaaatgagcccgtacttggtgaacgggagagccaaat
cgtgtgccaccaccagttgtccttatgggtaccaatgcaagttttctaatacggcgaagg
actacttttgttgctccaaacaaacgaaaaagagcaattcgaataggatacgaggaggag
gttgtgaacgtggaaacgcccttctctatccatcaactcaagaagccgtccaatgcgacc
cgctggcccgggggtgcccgcaggggtacctttgcctgcctcacgttttcaccaaaaaat
atcagtgctgttcggtatcagcaagtcgcgataataacacagatgaagctgaaatcactt
gccccagttatatggtaaagttgattgcgaaagtggatggaaagtcacaggttaaatgtg
taaaatcctgtccatccggac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGTGGTCCTAAAAATTCGCCGAA 40 293 1388 Antisense
CCCCAACAACTCAAGCTTCAACTAC 86 261 1439 Antisense
CGATAAAAGTTCCGGCCCAGCATTG 316 241 1499 Antisense
GCTCAAATGAGCCCGTACTTGGTGA 299 301 1528 Antisense
ACGGGAGAGCCAAATCGTGTGCCAC 129 95 1553 Antisense
CCACCACCAGTTGTCCTTATGGGTA 413 273 1574 Antisense
GCGAAGGACTACTTTTGTTGCTCCA 118 289 1621 Antisense
TTGTGAACGTGGAAACGCCCTTCTC 240 681 1689 Antisense
ATCCATCAACTCAAGAAGCCGTCCA 50 41 1715 Antisense
GAAGCTGAAATCACTTGCCCCAGTT 567 343 1852 Antisense
TGTGTAAAATCCTGTCCATCCGGAC 393 551 1924 Antisense
Sequence Source Affymetrix Proprietary Database