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[192802_s_at]

Description F55A8.2A /REP_DB=WormBase Gene ID /WP=CE19897 /TR=O76360 /GB=AAD36954.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclic-GMP-dependent protein kinase
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 29      4grp_highest_8_8 > 50      4grp_high_8_8 > 41      6grp_highest_nonorm > 40      6grp_total > 28      4grp_total > 46      6grp_highest_sub > Cu      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 464
1 2 3 4 range
A 795.6
(3)
P 		500.6
(-1.6)
P 		413
(-3)
P 		535.5
(-1.1)
P 		383
B 774.5
(3)
P 		659.8
(-0.6)
P 		584
(-3)
P 		619.3
(-1.9)
P 		191
C 836.2
(3)
P 		637.7
(0.4)
P 		681.7
(1)
P 		372
(-3)
P 		464
avr 802.1
(3) 		599.4
(-1.1) 		559.6
(-2) 		508.9
(-3) 		293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1437
1 2 3 4 5 6 range
A 531.2
(-2.5)
P 		1028.8
(3)
P 		485.7
(-3)
P 		585.2
(-1.9)
P 		526.3
(-2.6)
P 		893.6
(1.5)
P 		543
B 672.2
(2.8)
P 		681.2
(3)
P 		570.6
(0.3)
P 		435.5
(-3)
P 		581.5
(0.6)
P 		649.6
(2.2)
P 		246
C 1831.5
(3)
P 		613.8
(-2.1)
P 		699.3
(-1.7)
P 		394.5
(-3)
P 		956.7
(-0.7)
P 		495.4
(-2.6)
P 		1437
avr 1011.6
(3) 		774.6
(0.4) 		585.2
(-1.7) 		471.7
(-3) 		688.2
(-0.6) 		679.5
(-0.7) 		540
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 289.7
(3)
P 		108.7
(-2.1)
P 		108
(-2.2)
P 		78.4
(-3)
P 		211
B 247
(3)
P 		163
(-1.4)
P 		135.3
(-2.8)
P 		132
(-3)
P 		115
C 276.8
(3)
P 		183.3
(0.4)
P 		237.6
(1.9)
P 		62.7
(-3)
P 		214
avr 271.2
(3) 		151.7
(-1) 		160.3
(-0.7) 		91
(-3) 		180

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 600
1 2 3 4 5 6 range
A 97.9
(-3)
P 		365.9
(3)
P 		105.8
(-2.8)
P 		148.4
(-1.9)
P 		158.8
(-1.6)
P 		217.6
(-0.3)
P 		268
B 233.9
(2.6)
P 		226.7
(2.3)
P 		138.6
(-1.9)
P 		115.4
(-3)
P 		236.3
(2.7)
P 		242.2
(3)
P 		127
C 678.9
(3)
P 		187.3
(-1.9)
P 		178
(-2)
P 		79.3
(-3)
P 		309.6
(-0.7)
P 		165.8
(-2.1)
P 		600
avr 336.9
(3) 		260
(0.9) 		140.8
(-2.3) 		114.4
(-3) 		234.9
(0.2) 		208.5
(-0.5) 		223
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192802_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11215
Sequence Type Exemplar sequence
Representative Public ID F55A8.2A NCBI
Target Description F55A8.2A /REP_DB=WormBase Gene ID /WP=CE19897 /TR=O76360 /GB=AAD36954.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclic-GMP-dependent protein kinase
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_067740(11), NM_067741(11), NM_001028052(11), NM_171279(11), NM_001028053(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067740 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-4) (egl-4) mRNA, complete cds. 11/11 None
NM_067741 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-4) (egl-4) mRNA, complete cds. 11/11 None
NM_001028052 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-4) (egl-4) mRNA, complete cds. 11/11 None
NM_171279 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-4) (egl-4) mRNA, complete cds. 11/11 None
NM_001028053 NCBI Caenorhabditis elegans EGg Laying defective family member (egl-4) (egl-4) mRNA, complete cds. 11/11 None
SNAP00000037862 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1871082:1877880:1 10/11 None
GENEFINDER00000037870 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1876904:1879938:1 11/11 None
F55A8.2a.2 ENSEMBL cdna:known chromosome:CEL140:IV:1847964:1880574:1 gene:F55A8.2 11/11 None
F55A8.2a.1 ENSEMBL cdna:known chromosome:CEL140:IV:1847966:1880586:1 gene:F55A8.2 11/11 A 
F55A8.2a.3 ENSEMBL cdna:known chromosome:CEL140:IV:1847970:1880561:1 gene:F55A8.2 11/11 None
F55A8.2b ENSEMBL cdna:known chromosome:CEL140:IV:1849578:1879938:1 gene:F55A8.2 11/11 None
F55A8.2e ENSEMBL cdna:known chromosome:CEL140:IV:1854314:1879938:1 gene:F55A8.2 11/11 None
F55A8.2c ENSEMBL cdna:known chromosome:CEL140:IV:1858522:1879938:1 gene:F55A8.2 11/11 None
F55A8.2f ENSEMBL cdna:known chromosome:CEL140:IV:1873309:1879938:1 gene:F55A8.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171280 1/11 Cross Hyb Matching Probes None
SNAP00000037863 1/11 Cross Hyb Matching Probes None
F55A8.2d 1/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176991 6 5 NM_001028052 192802_s_at (11)
NM_001028053 192802_s_at (11)
NM_067740 174624_at (11), 192802_s_at (11)
NM_067741 192802_s_at (11)
NM_171279 192802_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1848074-1879944(+) 96.97 100.0
Public Domain and Genome References
Ensembl F55A8.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD36954 Egg laying defective protein 4, isoform a [Caenorhabditis elegans] ref|NP_500141.1| EGg Laying defective family member (egl-4) [Caenorhabditis elegans] 0.0
blast AAD36953 Egg laying defective protein 4, isoform b [Caenorhabditis elegans] ref|NP_500142.1| EGg Laying defective family member (egl-4) [Caenorhabditis elegans] 0.0
blast AAU05567 Egg laying defective protein 4, isoform e [Caenorhabditis elegans] ref|NP_001023223.1| EGg Laying defective family member (egl-4) [Caenorhabditis elegans] 0.0
blast AAM98010 Egg laying defective protein 4, isoform c [Caenorhabditis elegans] ref|NP_741329.1| EGg Laying defective family member (egl-4) [Caenorhabditis elegans] 0.0
Protein Families
Method ID Description E-Value
hanks 1.1.18 AGC group; AGC I Cyclic nucleotide regulated protein kinase (PKA & PKG); DG2 4.0E-81
hanks 1.1.18 AGC group; AGC I Cyclic nucleotide regulated protein kinase (PKA & PKG); DG2 1.0E-105
hanks 1.1.18 AGC group; AGC I Cyclic nucleotide regulated protein kinase (PKA & PKG); DG2 1.0E-106
Protein Domains
Database ID Description E-Value
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 2.1E-28
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 2.1E-28
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 2.1E-28
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 2.1E-28
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Pfam IPR000719 EMBL-EBI Protein kinase 1.9E-76
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 2.0E-5
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 3.5E-27
Pfam IPR000719 EMBL-EBI Protein kinase 7.8E-61
Pfam IPR000961 EMBL-EBI Protein kinase C-terminal domain 1.6E-4
Sequence
Target Sequence 
>C. ELEGANS:192802_S_AT
gggtctcgaatatctgcatcgcaagaatattgtctaccgagatttgaagcccgaaaactg
tctgctcgccaacactggatatctgaaacttgtggatttcggattcgcaaagaaactcgc
gtctggaaggaagacgtggacattctgtggaacaccggaatacgtgtcacctgaaattat
tctcaataagggacacgatcaagccgccgactattgggctcttggaatatatatctgtga
actgatgctcggacggccaccgttccaggctagtgatcctatgaagacgtatacattgat
cctaaagggagtagacgcactggagattccgaatcgtcggattggaaagacggcgacggc
gttggtgaagaagctctgcagggataacccgggagaacggctcggcagtggaagtggtgg
ggtgaatgatattcggaagcatcggtggtttatgggattcgattgggaaggattgagaag
taggacgttgaaacctccaattctgccgaaggtgtccaacccagcagacgtgacgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGTCTCGAATATCTGCATCGCAAG 508 497 1749 Antisense
TGAAGCCCGAAAACTGTCTGCTCGC 667 573 1793 Antisense
CTGCTCGCCAACACTGGATATCTGA 444 237 1810 Antisense
GGAACACCGGAATACGTGTCACCTG 706 527 1897 Antisense
TCTGTGAACTGATGCTCGGACGGCC 427 607 1982 Antisense
CACCGTTCCAGGCTAGTGATCCTAT 351 195 2006 Antisense
GAAAGACGGCGACGGCGTTGGTGAA 348 355 2093 Antisense
GAAGAAGCTCTGCAGGGATAACCCG 675 329 2115 Antisense
TAACCCGGGAGAACGGCTCGGCAGT 203 637 2133 Antisense
AGGACGTTGAAACCTCCAATTCTGC 19 55 2230 Antisense
TGTCCAACCCAGCAGACGTGACGAA 400 557 2261 Antisense
Sequence Source Affymetrix Proprietary Database