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[173601_s_at]

Description C50036 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y56A3A.11 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50036 /WB_GENE_ID=Y56A3A.11 /WP=CE24466 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk476h2 : 5prime end, single read.
Cluster 6grp_total > 82      4grp_total > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 246
1 2 3 4 range
A 135.2
(-0.6)
A 		87.2
(-2.2)
A 		63.6
(-3)
A 		243.9
(3)
A 		180
B 141.1
(2.5)
A 		32.4
(-3)
A 		116
(1.2)
A 		151.5
(3)
A 		119
C 39.9
(-3)
A 		78.8
(-2)
A 		108.4
(-1.3)
A 		278.1
(3)
M 		238
avr 105.4
(-1.5) 		66.1
(-3) 		96
(-1.9) 		224.5
(3) 		158

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 158
1 2 3 4 5 6 range
A 155.5
(0.9)
A 		76.8
(-2.3)
A 		207.8
(3)
A 		143.3
(0.4)
A 		131.2
(-0.1)
A 		59.2
(-3)
A 		149
B 132.2
(-1)
A 		181.7
(1.4)
A 		180.3
(1.3)
A 		173.5
(1)
A 		214.4
(3)
A 		91
(-3)
A 		123
C 56.5
(-3)
A 		156.9
(2.3)
A 		73.8
(-2.1)
A 		127.5
(0.8)
A 		157.4
(2.3)
A 		170.1
(3)
A 		114
avr 114.7
(-2.2) 		138.5
(0.1) 		154
(1.7) 		148.1
(1.1) 		167.7
(3) 		106.8
(-3) 		61
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 49.2
(3)
A 		18.9
(-2.6)
A 		16.6
(-3)
A 		35.7
(0.5)
A 		33
B 45
(3)
A 		8
(-3)
A 		26.9
(0.1)
A 		32.3
(0.9)
A 		37
C 13.2
(-3)
A 		22.7
(-1.3)
A 		37.8
(1.4)
A 		46.9
(3)
M 		34
avr 35.8
(2.3) 		16.5
(-3) 		27.1
(-0.1) 		38.3
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 28.7
(-0.2)
A 		27.3
(-0.5)
A 		45.2
(3)
A 		36.3
(1.3)
A 		39.6
(1.9)
A 		14.4
(-3)
A 		31
B 46
(-1.6)
A 		60.5
(0)
A 		43.8
(-1.9)
A 		46
(-1.6)
A 		87.1
(3)
A 		33.9
(-3)
A 		53
C 20.9
(-2.7)
A 		47.9
(1.6)
A 		18.8
(-3)
A 		25.6
(-1.9)
A 		50.9
(2.1)
A 		56.9
(3)
A 		38
avr 31.9
(-3) 		45.2
(-0.1) 		35.9
(-2.1) 		36
(-2.1) 		59.2
(3) 		35.1
(-2.3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173601_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24320
Sequence Type Exemplar sequence
Representative Public ID C50036 NCBI
Target Description C50036 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y56A3A.11 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50036 /WB_GENE_ID=Y56A3A.11 /WP=CE24466 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk476h2 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_067142
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067142 NCBI Caenorhabditis elegans Y56A3A.11 (Y56A3A.11) mRNA, complete cds. None
Y56A3A.11 ENSEMBL cdna:known chromosome:CEL140:III:11894673:11898145:-1 gene:Y56A3A.11 None
SNAP00000035194 ENSEMBL cdna:SNAP chromosome:CEL140:III:11894742:11906495:-1 None
GENEFINDER00000035229 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11895290:11898141:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000035233 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11894693-11898138(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y56A3A.11
Entrez Gene 176619 Entrez gene
SwissProt Q9U218 EMBL-EBI
WormBase CE31839 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6388 tRNA splicing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
214 tRNA-intron endonuclease complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
213 tRNA-intron endonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60524 Hypothetical protein Y56A3A.12a [Caenorhabditis elegans] ref|NP_499545.1| Y56A3A.12a [Caenorhabditis elegans] 0.0
blast CAB60525 Hypothetical protein Y56A3A.12b [Caenorhabditis elegans] ref|NP_499544.1| Y56A3A.12b [Caenorhabditis elegans] 0.0
blast CAE67735 Hypothetical protein CBG13310 [Caenorhabditis briggsae] 0.0
blast CAB60523 Hypothetical protein Y56A3A.11 [Caenorhabditis elegans] ref|NP_499543.2| Y56A3A.11 [Caenorhabditis elegans] 1.0E-158
blast CAB60523 Hypothetical protein Y56A3A.11 [Caenorhabditis elegans] ref|NP_499543.2| Y56A3A.11 [Caenorhabditis elegans] 1.0E-88
blast CAE67733 Hypothetical protein CBG13308 [Caenorhabditis briggsae] 2.0E-78
blast CAE67733 Hypothetical protein CBG13308 [Caenorhabditis briggsae] 5.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR000120 EMBL-EBI Amidase 1.7E-56
Pfam IPR000120 EMBL-EBI Amidase 3.0E-7
Sequence
Target Sequence 
>C. ELEGANS:173601_S_AT
agtggacacacttttggagcgcatggaatgaaaaatccaaatttgttttttttcaatttt
agctgggttcccgccaaactgagaatcgcaaccaatcagcgattcgccccgcccactttt
caaccaatcagacggagtgggcggagctcgaaggcgctgattggtcgtgatttaaccaaa
attgaaaaatctcttcgtttttgtttttttcagaaaattgtgatctactgccttggcgcc
gagttctatcattcttcggcgggagttctcatcgctgacgtcatcgatcctcgccggctt
ctaactctcacgcgaatcttgtcacacaataaaaaagcattgatagtggctactacaaca
tcagaagttgaatgttttgaggatgcgaatgcggttgatgtgaagatttctacaatgaag
acctattttctggagagagatgtcgcacaaatgtcgaatcggtgtaacgaggtgtacgag
ct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTGGACACACTTTTGGAGCGCATG 338 59 545 Antisense
TCAATTTTAGCTGGGTTCCCGCCAA 510 633 597 Antisense
TCCCGCCAAACTGAGAATCGCAACC 395 597 613 Antisense
CGGAGCTCGAAGGCGCTGATTGGTC 705 241 686 Antisense
AGGCGCTGATTGGTCGTGATTTAAC 439 51 696 Antisense
GCGCCGAGTTCTATCATTCTTCGGC 451 287 780 Antisense
ATCATTCTTCGGCGGGAGTTCTCAT 350 1 792 Antisense
CTCACGCGAATCTTGTCACACAATA 629 227 851 Antisense
GAGGATGCGAATGCGGTTGATGTGA 618 403 923 Antisense
GATGTCGCACAAATGTCGAATCGGT 479 409 983 Antisense
ATCGGTGTAACGAGGTGTACGAGCT 667 33 1002 Antisense
Sequence Source Affymetrix Proprietary Database