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[176483_at]

Description Y54F10AM.J /REP_DB=WormBase Gene ID /WP=CE26178 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_high1_10_10 > 12      6grp_total > 15      4grp_total > 30      6grp_cgc > 23      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 236
(3)
P 		149.5
(-1.7)
M 		125.5
(-3)
A 		135
(-2.5)
P 		111
B 212.4
(3)
P 		161.9
(-0.3)
A 		121.4
(-3)
A 		211.8
(3)
P 		91
C 211.4
(1.1)
P 		180.5
(-0.5)
A 		132.7
(-3)
P 		247.5
(3)
P 		115
avr 219.9
(3) 		164
(-0.6) 		126.5
(-3) 		198.1
(1.6) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 199
1 2 3 4 5 6 range
A 257.8
(3)
P 		254
(2.8)
P 		113.1
(-3)
A 		175.5
(-0.4)
P 		135.9
(-2.1)
P 		119.1
(-2.8)
A 		145
B 295.2
(3)
P 		278.6
(2.5)
P 		125.5
(-2.1)
M 		137.4
(-1.8)
A 		96.5
(-3)
M 		122.2
(-2.2)
P 		199
C 268.1
(3)
P 		238.9
(1.7)
P 		249.4
(2.2)
P 		156.4
(-1.9)
P 		157.5
(-1.8)
P 		131.1
(-3)
P 		137
avr 273.7
(3) 		257.2
(2.3) 		162.7
(-1.5) 		156.4
(-1.7) 		130
(-2.8) 		124.1
(-3) 		150
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 85.9
(3)
P 		32.5
(-1.8)
M 		32.8
(-1.8)
A 		19.8
(-3)
P 		66
B 67.7
(3)
P 		40
(-1.2)
A 		28.1
(-3)
A 		45.1
(-0.4)
P 		40
C 70
(3)
P 		51.9
(-0.8)
A 		46.2
(-2)
P 		41.7
(-3)
P 		28
avr 74.5
(3) 		41.5
(-2.1) 		35.7
(-3) 		35.5
(-3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 47.5
(-0.9)
P 		90.4
(3)
P 		24.6
(-3)
A 		44.5
(-1.2)
P 		41
(-1.5)
P 		29
(-2.6)
A 		66
B 102.7
(3)
P 		92.7
(2.2)
P 		30.5
(-3)
M 		36.4
(-2.5)
A 		39.2
(-2.3)
M 		45.6
(-1.7)
P 		72
C 99.4
(3)
P 		72.9
(0.7)
P 		63.5
(-0.2)
P 		31.4
(-3)
P 		51
(-1.3)
P 		43.9
(-1.9)
P 		68
avr 83.2
(2.7) 		85.3
(3) 		39.5
(-2.7) 		37.4
(-3) 		43.7
(-2.2) 		39.5
(-2.7) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176483_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18944
Sequence Type Exemplar sequence
Representative Public ID Y54F10AM.J NCBI
Target Description Y54F10AM.J /REP_DB=WormBase Gene ID /WP=CE26178 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_065175(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065175 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-44) (ceh-44) mRNA, complete cds. 11/11 None
GENEFINDER00000034928 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2530608:2542666:1 11/11 None
SNAP00000034922 ENSEMBL cdna:SNAP chromosome:CEL140:III:2536152:2542666:1 11/11 None
Y54F10AM.4a ENSEMBL cdna:known chromosome:CEL140:III:2530608:2543015:1 gene:Y54F10AM.4 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
175372 3 1 NM_065174 176499_at (11)
NM_065175 175548_at (11), 176483_at (11)
NM_065176 176499_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2535374-2542666(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y54F10AM.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29942 C.elegans homeobox protein 44, isoform a [Caenorhabditis elegans] ref|NP_497576.1| C.Elegans Homeobox family member (ceh-44) [Caenorhabditis elegans] 0.0
blast CAE65011 Hypothetical protein CBG09849 [Caenorhabditis briggsae] 0.0
blast AAN84834 C.elegans homeobox protein 44, isoform c [Caenorhabditis elegans] ref|NP_497577.2| C.Elegans Homeobox family member (ceh-44) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999987368938E-5
Pfam IPR001356 EMBL-EBI Homeobox 3.1E-10
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 9.3E-31
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 8.5E-38
Pfam IPR001356 EMBL-EBI Homeobox 3.1E-10
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 9.3E-31
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 8.5E-38
Sequence
Target Sequence 
>C. ELEGANS:176483_AT
tgaaagtgttccagcaccacgtgaagctcctcgtccagtgaagcggaagcattcttctga
cactgatgactatgatcttaacacaaagaagcctatccagagaactgttatcactgatta
tcagaaagatactctgcgattcgtgtttgttaatgagcagcatccttccaacgaactttg
cgagcagatatctctaaaactggatatgtcactgagaaccgtccaaaactggttccacaa
tcaccgaactaggagcaaagcgagagagaaggagggaaaagtgtactctgatgctctacc
caatggaacagcagtcaaaagtctcacctggaaggatgatcttcagaagatgctcgacga
agcgccggcaatcactagccaatgggctccggactatcaaaatcgggcgggatccgtaaa
aagctcgacttcggcggattctccgacaaataacaattatagctcgccgattttcagttt
tgacaaagcttcgactacttccact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAAGTGTTCCAGCACCACGTGAA 53 573 3174 Antisense
GAAGCATTCTTCTGACACTGATGAC 684 341 3219 Antisense
GAAAGATACTCTGCGATTCGTGTTT 52 361 3297 Antisense
CAGCATCCTTCCAACGAACTTTGCG 112 205 3331 Antisense
AAAAGTGTACTCTGATGCTCTACCC 94 133 3450 Antisense
CAGAAGATGCTCGACGAAGCGCCGG 328 205 3517 Antisense
GCCGGCAATCACTAGCCAATGGGCT 290 283 3537 Antisense
CAATGGGCTCCGGACTATCAAAATC 382 183 3553 Antisense
AAAAGCTCGACTTCGGCGGATTCTC 466 131 3592 Antisense
TAGCTCGCCGATTTTCAGTTTTGAC 629 651 3633 Antisense
TGACAAAGCTTCGACTACTTCCACT 289 571 3654 Antisense
Sequence Source Affymetrix Proprietary Database