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[180396_at]

Description Y39G8B.5 /REP_DB=WormBase Gene ID /WP=CE24247 /TR=Q9U2J3 /GB=CAB60338.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 43      4grp_total > 34      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 22.7
(-0.6)
A 		48.6
(2.9)
A 		4.7
(-3)
A 		49.7
(3)
A 		45
B 22.6
(-2.2)
A 		31.6
(-0)
A 		44.1
(3)
A 		19.3
(-3)
A 		25
C 35.4
(1.9)
A 		33.9
(1)
A 		37.2
(3)
A 		27.3
(-3)
A 		10
avr 26.9
(-3) 		38
(3) 		28.7
(-2) 		32.1
(-0.2) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 25.1
(-3)
A 		31.7
(-1.4)
A 		50.4
(3)
A 		36.9
(-0.2)
A 		32.8
(-1.1)
A 		24.9
(-3)
A 		26
B 37.1
(0.9)
A 		53.6
(3)
A 		49.1
(2.4)
A 		24.7
(-0.6)
A 		5.8
(-3)
A 		14.2
(-1.9)
A 		48
C 40
(1.2)
A 		21.1
(-1)
A 		56
(3)
A 		4.1
(-2.9)
A 		3.1
(-3)
A 		4.6
(-2.8)
A 		53
avr 34.1
(0.2) 		35.5
(0.4) 		51.8
(3) 		21.9
(-1.7) 		13.9
(-3) 		14.6
(-2.9) 		38
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 8.3
(1.6)
A 		10.5
(3)
A 		1.2
(-3)
A 		7.3
(0.9)
A 		9
B 7.2
(0)
A 		7.8
(0.6)
A 		10.2
(3)
A 		4.1
(-3)
A 		6
C 11.7
(2.1)
A 		9.8
(0.7)
A 		13
(3)
A 		4.6
(-3)
A 		8
avr 9.1
(2.6) 		9.4
(3) 		8.1
(1.1) 		5.3
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 4.6
(-3)
A 		11.3
(3)
A 		11
(2.7)
A 		9.4
(1.3)
A 		9.9
(1.7)
A 		6.1
(-1.7)
A 		7
B 12.9
(1.1)
A 		17.8
(3)
A 		11.9
(0.7)
A 		6.5
(-1.4)
A 		2.4
(-3)
A 		5.3
(-1.9)
A 		15
C 14.8
(3)
A 		6.4
(-0.6)
A 		14.3
(2.8)
A 		0.8
(-3)
A 		1
(-2.9)
A 		1.6
(-2.7)
A 		14
avr 10.8
(1.8) 		11.8
(2.6) 		12.4
(3) 		5.6
(-2) 		4.4
(-2.9) 		4.3
(-3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180396_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3565
Sequence Type Exemplar sequence
Representative Public ID Y39G8B.5 NCBI
Target Description Y39G8B.5 /REP_DB=WormBase Gene ID /WP=CE24247 /TR=Q9U2J3 /GB=CAB60338.1 /SUBMIT=HINXTON /CHR=2 /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_064528(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064528 NCBI Caenorhabditis elegans Y39G8B.5 (Y39G8B.5) mRNA, complete cds. 11/11 None
SNAP00000038669 ENSEMBL cdna:SNAP chromosome:CEL140:II:13987508:13991730:-1 11/11 None
GENEFINDER00000038676 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13982201:13991730:-1 10/11 None
Y39G8B.5 ENSEMBL cdna:known chromosome:CEL140:II:13987508:13991730:-1 gene:Y39G8B.5 11/11 None
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
chrII:13987504-13991727(-) 99.13 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39G8B.5
Entrez Gene 189764 Entrez gene
SwissProt Q9U2J3 EMBL-EBI
WormBase CE28702 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6468 protein amino acid phosphorylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4672 protein kinase activity inferred from electronic annotation QuickGO AmiGO
4674 protein serine/threonine kinase activity inferred from electronic annotation QuickGO AmiGO
4713 protein-tyrosine kinase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60338 Hypothetical protein Y39G8B.5 [Caenorhabditis elegans] ref|NP_496929.1| Y39G8B.5 [Caenorhabditis elegans] 0.0
blast T26770 hypothetical protein Y39G8B.e - Caenorhabditis elegans 0.0
blast CAI46627 Hypothetical protein R107.4d [Caenorhabditis elegans] ref|NP_001022708.1| R107.4d [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000719 EMBL-EBI Protein kinase 2.3E-12
Pfam IPR000719 EMBL-EBI Protein kinase 0.0075
Pfam IPR000719 EMBL-EBI Protein kinase 8.3E-19
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 2.6E-8
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 6.8
Pfam IPR004151 EMBL-EBI C. elegans Sre G protein-coupled chemoreceptor 1.7E-45
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000038676 2 728-750,793-815
Sequence
Target Sequence 
>C. ELEGANS:180396_AT
gacatggatctgccaggaattcgtagagaaatcgagtcatacctattttatgacaaagca
accatcttgagcactcagaaatatacccaggaactagttgagctgtgtttaaaaagaaga
aatacagtaatgaagcagatattcaattcacccgatggaataaataaaagtaaattgaat
actgcaatgaatttggcggcatctctcagtcaactacgttcggattatcaaaaacttcaa
gatatgatatccgaatgtgtggatctactcgagaagccattccaagtaatgaaagataat
gtaaatcgttatctacaagcccagggatgttcccggaatacgatggaaaagtctatgcat
ttgttaagacccgaatttcacgagaatcaaattcgcatgaagaagtccaccaaatcgtgt
agaaaactcatcgaccaactgaacaaagaattggaacaactcgggtttgttctcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACATGGATCTGCCAGGAATTCGTA 653 369 1687 Antisense
GACAAAGCAACCATCTTGAGCACTC 610 365 1738 Antisense
AGCACTCAGAAATATACCCAGGAAC 119 71 1756 Antisense
CCCAGGAACTAGTTGAGCTGTGTTT 475 257 1772 Antisense
GCAGATATTCAATTCACCCGATGGA 2 313 1821 Antisense
AATGAATTTGGCGGCATCTCTCAGT 657 165 1872 Antisense
ATCTCTCAGTCAACTACGTTCGGAT 185 33 1887 Antisense
ACAAGCCCAGGGATGTTCCCGGAAT 321 111 2001 Antisense
AAGACCCGAATTTCACGAGAATCAA 116 153 2052 Antisense
GCATGAAGAAGTCCACCAAATCGTG 207 311 2081 Antisense
TGGAACAACTCGGGTTTGTTCTCGT 659 545 2138 Antisense
Sequence Source Affymetrix Proprietary Database