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[174445_at]

Description C56824_rc /REP_DB=TREMBL Accession /GB=C56824 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk278d12 : 3prime end, single read.
Cluster 6grp_total > 75      4grp_total > 34      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 1.6
(-2.9)
A 		24.7
(3)
A 		1.4
(-3)
A 		5.3
(-2)
A 		23
B 3.9
(-2.5)
A 		19.2
(3)
A 		2.6
(-3)
A 		4.8
(-2.2)
A 		17
C 5.8
(-2.5)
A 		3.1
(-3)
A 		10.9
(-1.6)
A 		37.2
(3)
A 		34
avr 3.8
(-3) 		15.7
(3) 		5
(-2.4) 		15.8
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 2.4
(-3)
A 		18.7
(-0.1)
A 		3.6
(-2.8)
A 		36.6
(3)
A 		28.3
(1.5)
A 		32.1
(2.2)
A 		34
B 2.7
(-2.9)
A 		2.1
(-3)
A 		6.1
(-2.1)
A 		4.2
(-2.5)
A 		3
(-2.8)
A 		28.7
(3)
A 		27
C 2.6
(-2.9)
A 		1.7
(-3)
A 		39.7
(3)
A 		27.4
(1.1)
A 		7.4
(-2.1)
A 		33.2
(2)
A 		38
avr 2.6
(-3) 		7.5
(-2) 		16.5
(-0.1) 		22.7
(1.2) 		12.9
(-0.8) 		31.3
(3) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 0.6
(-2.8)
A 		5.4
(3)
A 		0.4
(-3)
A 		0.8
(-2.5)
A 		5
B 1.3
(-2)
A 		4.7
(3)
A 		0.6
(-3)
A 		1
(-2.4)
A 		4
C 1.9
(-1.9)
A 		0.9
(-3)
A 		3.8
(0.2)
A 		6.3
(3)
A 		5
avr 1.3
(-3) 		3.7
(3) 		1.6
(-2.3) 		2.7
(0.5) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.5
(-3)
A 		6.6
(1.2)
A 		0.8
(-2.8)
A 		9.3
(3)
A 		8.5
(2.5)
A 		7.8
(2)
A 		9
B 0.9
(-2.9)
A 		0.7
(-3)
A 		1.5
(-2.5)
A 		1.1
(-2.8)
A 		1.2
(-2.7)
A 		10.7
(3)
A 		10
C 1
(-2.7)
A 		0.5
(-3)
A 		10.1
(2.4)
A 		5.5
(-0.2)
A 		2.4
(-1.9)
A 		11.1
(3)
A 		11
avr 0.8
(-3) 		2.6
(-1.8) 		4.1
(-0.8) 		5.3
(-0) 		4
(-0.9) 		9.9
(3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174445_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20443
Sequence Type Exemplar sequence
Representative Public ID C56824 NCBI
Target Description C56824_rc /REP_DB=TREMBL Accession /GB=C56824 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk278d12 : 3prime 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 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_058267(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058267 NCBI Caenorhabditis elegans Y48G1C.5 (Y48G1C.5) mRNA, complete cds. 11/11 A 
SNAP00000011474 ENSEMBL cdna:SNAP chromosome:CEL140:I:55337:64021:-1 11/11 None
Y48G1C.5 ENSEMBL cdna:known chromosome:CEL140:I:55316:64021:-1 gene:Y48G1C.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000011499 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:55371-56166(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48G1C.5
Entrez Gene 171595 Entrez gene
SwissProt Q9BL78 EMBL-EBI
WormBase CE37433 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6470 protein amino acid dephosphorylation inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
4725 protein tyrosine phosphatase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_490668 Y48G1C.5 [Caenorhabditis elegans] gb|AAK29895.3| Hypothetical protein Y48G1C.5 [Caenorhabditis elegans] 0.0
blast AAB66199 Hypothetical protein K09F6.3 [Caenorhabditis elegans] ref|NP_494221.2| K09F6.3 [Caenorhabditis elegans] 4.0E-43
blast CAE58057 Hypothetical protein CBG01136 [Caenorhabditis briggsae] 5.0E-42
blast AAB66199 Hypothetical protein K09F6.3 [Caenorhabditis elegans] ref|NP_494221.2| K09F6.3 [Caenorhabditis elegans] 4.0E-26
blast CAE70744 Hypothetical protein CBG17489 [Caenorhabditis briggsae] 2.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR003125 EMBL-EBI Protein of unknown function WSN 6.3E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 7.2E-30
Pfam IPR003125 EMBL-EBI Protein of unknown function WSN 6.3E-8
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 7.2E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490668.3 2 512-534,836-853
Y48G1C.5 2 512-534,836-853
SNAP00000011474 3 7-29,799-821,1123-1140
Sequence
Target Sequence 
>C. ELEGANS:174445_AT
gcagcgtttgttctcatcgagagcctcttccaagcgatcaatacaagtgaaactggagaa
atcaattatcggagtctgattgaacaaacgagatcaaagagaaaatgtgctgcaccggat
ccaatttatttggcatttgcattttacacgactctcactcttttctatccagcaaacgca
catgatgatgcttatgtgactcaaatttgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGCGTTTGTTCTCATCGAGAGCC 456 311 43 Antisense
AGCCTCTTCCAAGCGATCAATACAA 132 83 64 Antisense
GGAGAAATCAATTATCGGAGTCTGA 656 519 97 Antisense
TCAAAGAGAAAATGTGCTGCACCGG 139 621 136 Antisense
GTGCTGCACCGGATCCAATTTATTT 517 477 149 Antisense
GGATCCAATTTATTTGGCATTTGCA 21 513 159 Antisense
GGCATTTGCATTTTACACGACTCTC 520 537 174 Antisense
ATTTGCATTTTACACGACTCTCACT 507 17 177 Antisense
TCTTTTCTATCCAGCAAACGCACAT 683 615 201 Antisense
GCAAACGCACATGATGATGCTTATG 120 319 214 Antisense
GATGCTTATGTGACTCAAATTTGTC 624 413 229 Antisense
Sequence Source Affymetrix Proprietary Database