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[176540_s_at]

Description Y55B1BM.1 /REP_DB=WormBase Gene ID /WP=CE26184 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 72      6grp_total > 55      4grp_total > 39      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 360.2
(3)
P 		289.8
(-1.4)
P 		263.8
(-3)
P 		325.7
(0.9)
P 		96
B 347.6
(3)
P 		250
(-3)
P 		269.5
(-1.8)
P 		277
(-1.3)
P 		98
C 389.7
(3)
P 		255.6
(-3)
P 		305.7
(-0.8)
P 		263.9
(-2.6)
P 		134
avr 365.8
(3) 		265.1
(-3) 		279.7
(-2.1) 		288.9
(-1.6) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 255
1 2 3 4 5 6 range
A 362
(-1.2)
P 		368.6
(-1)
P 		496.7
(3)
P 		328.7
(-2.3)
P 		306.5
(-3)
P 		428.1
(0.8)
P 		190
B 406.2
(-0.9)
P 		463.3
(1)
P 		522.6
(3)
P 		345.5
(-3)
P 		378.7
(-1.9)
P 		451.5
(0.6)
P 		177
C 361.9
(-0.4)
P 		471.8
(2.6)
P 		307.8
(-1.9)
P 		347.3
(-0.8)
P 		267.8
(-3)
P 		487.5
(3)
P 		220
avr 376.7
(-0.4) 		434.6
(2.1) 		442.4
(2.4) 		340.5
(-2) 		317.7
(-3) 		455.7
(3) 		138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 131.1
(3)
P 		62.9
(-1.9)
P 		69
(-1.5)
P 		47.7
(-3)
P 		83
B 110.9
(3)
P 		61.7
(-2.7)
P 		62.5
(-2.6)
P 		59
(-3)
P 		52
C 129
(3)
P 		73.5
(-0.9)
P 		106.5
(1.4)
P 		44.5
(-3)
P 		85
avr 123.7
(3) 		66
(-1.7) 		79.3
(-0.6) 		50.4
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 66.7
(-3)
P 		131.1
(3)
P 		108.2
(0.9)
P 		83.4
(-1.4)
P 		92.5
(-0.6)
P 		104.2
(0.5)
P 		64
B 141.3
(0.9)
P 		154.2
(1.9)
P 		126.9
(-0.2)
P 		91.5
(-3)
P 		153.9
(1.9)
P 		168.4
(3)
P 		77
C 134.2
(1.1)
P 		144
(1.8)
P 		78.3
(-2.5)
P 		69.8
(-3)
P 		86.7
(-1.9)
P 		163.2
(3)
P 		93
avr 114.1
(0.1) 		143.1
(2.8) 		104.5
(-0.8) 		81.6
(-3) 		111
(-0.2) 		145.3
(3) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176540_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8131
Sequence Type Exemplar sequence
Representative Public ID Y55B1BM.1 NCBI
Target Description Y55B1BM.1 /REP_DB=WormBase Gene ID /WP=CE26184 /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_171858(11), NM_171065(11), NM_001027745(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171858 NCBI Caenorhabditis elegans Y55B1BM.1a (Y55B1BM.1) mRNA, complete cds. 11/11 A 
NM_171065 NCBI Caenorhabditis elegans Y55B1BM.1b (Y55B1BM.1) mRNA, complete cds. 11/11 A 
NM_001027745 NCBI Caenorhabditis elegans Y55B1BM.1c (Y55B1BM.1) mRNA, complete cds. 11/11 None
GENEFINDER00000024788 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:408417:418691:-1 11/11 None
Y55B1BM.1a.2 ENSEMBL cdna:known chromosome:CEL140:III:408127:418691:-1 gene:Y55B1BM.1 11/11 A 
Y55B1BM.1c ENSEMBL cdna:known chromosome:CEL140:III:408128:418737:-1 gene:Y55B1BM.1 11/11 A 
Y55B1BM.1b ENSEMBL cdna:known chromosome:CEL140:III:408134:418691:-1 gene:Y55B1BM.1 11/11 A 
Y55B1BM.1a.1 ENSEMBL cdna:known chromosome:CEL140:III:408161:418691:-1 gene:Y55B1BM.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:410529-418691(-) 97.66 100.0
Public Domain and Genome References
Ensembl Y55B1BM.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF59596 Hypothetical protein Y55B1BM.1a [Caenorhabditis elegans] ref|NP_741074.1| Y55B1BM.1a [Caenorhabditis elegans] 0.0
blast AAL32257 Hypothetical protein Y55B1BM.1b [Caenorhabditis elegans] ref|NP_741073.1| Y55B1BM.1b [Caenorhabditis elegans] 0.0
blast CAE69493 Hypothetical protein CBG15699 [Caenorhabditis briggsae] 0.0
blast AAP40515 Hypothetical protein Y55B1BM.1c [Caenorhabditis elegans] ref|NP_001022916.1| Y55B1BM.1c [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741074.1 2 4-22,193-210
NP_741073.1 2 4-22,193-210
NP_001022916.1 2 4-22,193-210
Y55B1BM.1a.2 2 4-22,193-210
Y55B1BM.1c 2 4-22,193-210
Y55B1BM.1b 2 4-22,193-210
Y55B1BM.1a.1 2 4-22,193-210
GENEFINDER00000024788 2 4-22,193-210
Sequence
Target Sequence 
>C. ELEGANS:176540_S_AT
gcagagacaagattgcttcaaggaaatgaaagaggccatcgaaatggtggatcgtctaca
gaaaaagcaaggaagtgtactttcctcgttgaaattggcaactggagcagcttccacgtc
ggatcaagtcgattcgaagattttcgcgttgaaaagtcgaatggaaaaaatccacacatt
gacacgtgaaactcaagaacgatggcttcaaattgaatcactttgcggttttccact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGAGACAAGATTGCTTCAAGGAA 267 313 1110 Antisense
GAGGCCATCGAAATGGTGGATCGTC 473 405 1141 Antisense
GCAAGGAAGTGTACTTTCCTCGTTG 551 321 1176 Antisense
GTACTTTCCTCGTTGAAATTGGCAA 221 459 1186 Antisense
TTGGCAACTGGAGCAGCTTCCACGT 287 709 1204 Antisense
CAGCTTCCACGTCGGATCAAGTCGA 84 203 1217 Antisense
TCCACGTCGGATCAAGTCGATTCGA 257 585 1222 Antisense
GTCGATTCGAAGATTTTCGCGTTGA 452 473 1237 Antisense
ATCCACACATTGACACGTGAAACTC 264 41 1279 Antisense
GAAACTCAAGAACGATGGCTTCAAA 476 357 1297 Antisense
TTGAATCACTTTGCGGTTTTCCACT 586 703 1322 Antisense
Sequence Source Affymetrix Proprietary Database