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[177280_at]

Description Y54F10AL.B /REP_DB=WormBase Gene ID /WP=CE25441 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59559.1
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 73      4grp_highest_8_8 > 18      4grp_high_8_8 > 63      6grp_highest_nonorm > 72      6grp_total > 70      4grp_total > 56      6grp_highest_sub > 04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 430
1 2 3 4 range
A 523.5
(-1.4)
P 		592.3
(0.8)
P 		659.8
(3)
P 		472.8
(-3)
P 		187
B 516.6
(-1.6)
P 		588.9
(-0.5)
P 		843
(3)
P 		413.3
(-3)
P 		430
C 506.1
(-1.5)
P 		616.8
(0.5)
P 		754.9
(3)
P 		420.1
(-3)
P 		335
avr 515.4
(-1.5) 		599.3
(0.1) 		752.6
(3) 		435.4
(-3) 		317

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 295
1 2 3 4 5 6 range
A 323.6
(-2.2)
P 		484.9
(1.7)
P 		408.6
(-0.2)
P 		539.3
(3)
P 		290.6
(-3)
P 		441.2
(0.6)
P 		249
B 312.8
(-0.6)
P 		244
(-3)
P 		345.4
(0.5)
P 		418.2
(3)
P 		369.4
(1.3)
P 		375.3
(1.5)
P 		174
C 504.1
(3)
P 		349.2
(-3)
P 		456.8
(1.2)
P 		392.1
(-1.3)
P 		448.5
(0.8)
P 		399
(-1.1)
P 		155
avr 380.2
(-1.6) 		359.4
(-3) 		403.6
(-0.1) 		449.9
(3) 		369.5
(-2.3) 		405.2
(0) 		91
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 194
1 2 3 4 range
A 190.6
(3)
P 		128.6
(-0.1)
P 		172.5
(2.1)
P 		69.2
(-3)
P 		121
B 164.7
(1.3)
P 		145.4
(0.2)
P 		195.3
(3)
P 		88.1
(-3)
P 		107
C 167.5
(0)
P 		177.3
(0.3)
P 		263.1
(3)
P 		70.8
(-3)
P 		192
avr 174.3
(1.4) 		150.4
(0.3) 		210.3
(3) 		76
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 59.6
(-3)
P 		172.4
(3)
P 		89
(-1.4)
P 		136.8
(1.1)
P 		87.7
(-1.5)
P 		107.4
(-0.5)
P 		113
B 108.8
(-0.6)
P 		81.2
(-3)
P 		83.9
(-2.8)
P 		110.8
(-0.4)
P 		150.1
(3)
P 		139.9
(2.1)
P 		69
C 186.9
(3)
P 		106.6
(-1.5)
P 		116.3
(-0.9)
P 		78.9
(-3)
P 		145.1
(0.7)
P 		133.6
(0)
P 		108
avr 118.4
(1.2) 		120.1
(1.6) 		96.4
(-3) 		108.8
(-0.6) 		127.6
(3) 		127
(2.9) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177280_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18943
Sequence Type Exemplar sequence
Representative Public ID Y54F10AL.B NCBI
Target Description Y54F10AL.B /REP_DB=WormBase Gene ID /WP=CE25441 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59559.1
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_065166(10), NM_065167(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065166 NCBI Caenorhabditis elegans Y54F10AL.1a (Y54F10AL.1) mRNA, complete cds. 10/11 A 
NM_065167 NCBI Caenorhabditis elegans Y54F10AL.1b (Y54F10AL.1) mRNA, complete cds. 10/11 A 
Y54F10AL.1b ENSEMBL cdna:known chromosome:CEL140:III:2487757:2491921:1 gene:Y54F10AL.1 10/11 A 
Y54F10AL.1a ENSEMBL cdna:known chromosome:CEL140:III:2487762:2494248:1 gene:Y54F10AL.1 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000034917 1/11 Cross Hyb Matching Probes None
GENEFINDER00000034935 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2487761-2489167(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y54F10AL.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK27882 Hypothetical protein Y54F10AL.1a [Caenorhabditis elegans] ref|NP_497567.1| Y54F10AL.1a [Caenorhabditis elegans] 1.0E-117
blast CAE69473 Hypothetical protein CBG15669 [Caenorhabditis briggsae] 1.0E-111
blast AAK27883 Hypothetical protein Y54F10AL.1b [Caenorhabditis elegans] ref|NP_497568.1| Y54F10AL.1b [Caenorhabditis elegans] 1.0E-101
blast AAK27883 Hypothetical protein Y54F10AL.1b [Caenorhabditis elegans] ref|NP_497568.1| Y54F10AL.1b [Caenorhabditis elegans] 3.0E-89
blast AAK27882 Hypothetical protein Y54F10AL.1a [Caenorhabditis elegans] ref|NP_497567.1| Y54F10AL.1a [Caenorhabditis elegans] 3.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 1.5E-29
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 2.3E-38
Pfam IPR001727 EMBL-EBI Protein of unknown function UPF0016 7.4E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497567.1 4 100-122,129-151,236-258,265-287
NP_497568.1 4 5-22,63-82,99-121,125-144
Y54F10AL.1b 4 5-22,63-82,99-121,125-144
Y54F10AL.1a 4 100-122,129-151,236-258,265-287
Sequence
Target Sequence 
>C. ELEGANS:177280_AT
ttctcgctcactttcctattagtgagccttctcattcttgtcccgcacgtgacggtcgcc
gaaagtgatgcagttaaagacgtggataccgtcgacgtgaagctcgatgagaccgctgta
gtggagaaaactgaagaaaaagaggcacagaaggagcacaagaaaatctcctcagaagac
atttcattctatcacggatttctcgcctcattttcagtgattgttgtatcagaattgggt
gataaaacatggtttatcgcagttattatgtcaatgagacactctcgtcttactgtattc
tctggtgcaatgggtgctcttgctttgatgactgtactctccgcatgtcttggatgggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTCGCTCACTTTCCTATTAGTGA 456 693 19 Antisense
TTAGTGAGCCTTCTCATTCTTGTCC 674 681 37 Antisense
CGCACGTGACGGTCGCCGAAAGTGA 68 255 62 Antisense
CGTGGATACCGTCGACGTGAAGCTC 292 241 99 Antisense
GAAGCTCGATGAGACCGCTGTAGTG 340 343 117 Antisense
GACATTTCATTCTATCACGGATTTC 179 371 196 Antisense
TTTCTCGCCTCATTTTCAGTGATTG 362 671 217 Antisense
GAGACACTCTCGTCTTACTGTATTC 103 393 294 Antisense
GGTGCAATGGGTGCTCTTGCTTTGA 59 501 322 Antisense
CTTGCTTTGATGACTGTACTCTCCG 293 219 337 Antisense
TACTCTCCGCATGTCTTGGATGGGT 342 645 353 Antisense
Sequence Source Affymetrix Proprietary Database