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[175569_at]

Description AW057333 /REP_DB=TREMBL Accession /GB=AW057333 /CHR=3 /FEA=Genomic Cluster /DEF=ca01c03.x1 C elegans fem3 Q23 S1 Caenorhabditis elegans cDNA 3prime similar to WP:C39H7.1 CE06942 CASEIN KINASE ;, mRNA sequence.
Cluster 6grp_total > 97      4grp_total > 11      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 83
1 2 3 4 range
A 19.8
(-1.7)
A 		6.6
(-2.7)
A 		1.8
(-3)
A 		84.5
(3)
A 		83
B 4
(-3)
A 		36.4
(2.2)
A 		12.4
(-1.7)
A 		41.5
(3)
A 		38
C 24.3
(1.4)
A 		5.3
(-3)
A 		8.4
(-2.3)
A 		31.1
(3)
A 		26
avr 16
(-1.9) 		16.1
(-1.9) 		7.5
(-3) 		52.4
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 7.5
(-2.6)
A 		5.7
(-2.8)
A 		3.8
(-3)
A 		40.1
(0.6)
A 		62.2
(2.8)
A 		63.7
(3)
P 		60
B 14
(-2.3)
A 		3.7
(-3)
A 		23.2
(-1.6)
A 		5.5
(-2.9)
A 		49.4
(0.3)
P 		86.9
(3)
P 		83
C 12.1
(-2.3)
A 		5.3
(-2.8)
A 		1.6
(-3)
A 		42.1
(-0.4)
A 		87.3
(2.4)
P 		96.3
(3)
P 		95
avr 11.2
(-2.5) 		4.9
(-3) 		9.5
(-2.6) 		29.2
(-1.1) 		66.3
(1.8) 		82.3
(3) 		77
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 7.2
(0.4)
A 		1.4
(-2.5)
A 		0.5
(-3)
A 		12.4
(3)
A 		12
B 1.3
(-3)
A 		9
(3)
A 		2.9
(-1.8)
A 		8.8
(2.8)
A 		8
C 8
(3)
A 		1.5
(-3)
A 		2.9
(-1.7)
A 		5.2
(0.4)
A 		7
avr 5.5
(0) 		4
(-1.3) 		2.1
(-3) 		8.8
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 1.4
(-2.8)
A 		2
(-2.6)
A 		0.8
(-3)
A 		10.2
(0.1)
A 		18.8
(3)
A 		15.5
(1.9)
P 		18
B 4.9
(-2.3)
A 		1.2
(-3)
A 		5.6
(-2.2)
A 		1.4
(-3)
A 		20.1
(0.6)
P 		32.4
(3)
P 		31
C 4.5
(-2.2)
A 		1.6
(-2.8)
A 		0.4
(-3)
A 		8.5
(-1.5)
A 		28.2
(2.2)
P 		32.2
(3)
P 		32
avr 3.6
(-2.5) 		1.6
(-3) 		2.3
(-2.8) 		6.7
(-1.8) 		22.4
(2) 		26.7
(3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175569_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21071
Sequence Type Exemplar sequence
Representative Public ID AW057333 NCBI
Target Description AW057333 /REP_DB=TREMBL Accession /GB=AW057333 /CHR=3 /FEA=Genomic Cluster /DEF=ca01c03.x1 C elegans fem3 Q23 S1 Caenorhabditis elegans cDNA 3prime similar to WP:C39H7.1 CE06942 CASEIN KINASE ;, mRNA sequence.
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_067081(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067081 NCBI Caenorhabditis elegans defective SPErmatogenesis family member (spe-6) (spe-6) mRNA, complete cds. 11/11 None
GENEFINDER00000020823 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11505430:11508743:1 11/11 None
SNAP00000020809 ENSEMBL cdna:SNAP chromosome:CEL140:III:11506412:11508695:1 11/11 None
Y66D12A.20 ENSEMBL cdna:known chromosome:CEL140:III:11505430:11508789:1 gene:Y66D12A.20 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
chrIII:11508389-11508775(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol spe-6
Ensembl Y66D12A.20
Entrez Gene 176582 Entrez gene
SwissProt Q95PZ9 EMBL-EBI
WormBase CE28799 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
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAC70138 Hypothetical protein Y66D12A.20 [Caenorhabditis elegans] ref|NP_499482.1| defective SPErmatogenesis family member (spe-6) [Caenorhabditis elegans] 0.0
blast CAE67702 Hypothetical protein CBG13273 [Caenorhabditis briggsae] 0.0
blast CAE67702 Hypothetical protein CBG13273 [Caenorhabditis briggsae] 1.0E-161
blast CAE67702 Hypothetical protein CBG13273 [Caenorhabditis briggsae] 1.0E-157
blast CAE72809 Hypothetical protein CBG20086 [Caenorhabditis briggsae] 7.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR000719 EMBL-EBI Protein kinase 6.7E-4
Pfam IPR000719 EMBL-EBI Protein kinase 6.7E-4
Pfam IPR000719 EMBL-EBI Protein kinase 6.7E-4
Sequence
Target Sequence 
>C. ELEGANS:175569_AT
aggccaaattacaagaagctcggtgatttgctgtctcaggccgccacggagcatcaagtg
acactgaaagagcctttggactggcagaataatgagagaatgcagcaaaaggcgattttc
gtcggggaactcggagaatctcatcaagcgtcggcgaagttggatgcgaaggacaatgcg
aatgagtcgatggatattgaatttgatgatatgccaccaaaagagggaatttctaaatcg
ctcagtgcggagaaatcgtgtacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGCCAAATTACAAGAAGCTCGGTG 205 51 18 Antisense
AGCTCGGTGATTTGCTGTCTCAGGC 272 81 34 Antisense
CAAGTGACACTGAAAGAGCCTTTGG 654 183 72 Antisense
GAAAGAGCCTTTGGACTGGCAGAAT 131 361 83 Antisense
GCGATTTTCGTCGGGGAACTCGGAG 310 289 129 Antisense
GTCGGGGAACTCGGAGAATCTCATC 194 473 138 Antisense
GAATCTCATCAAGCGTCGGCGAAGT 250 329 153 Antisense
TCAAGCGTCGGCGAAGTTGGATGCG 325 631 161 Antisense
GTTGGATGCGAAGGACAATGCGAAT 281 437 176 Antisense
GGAATTTCTAAATCGCTCAGTGCGG 161 533 243 Antisense
CTCAGTGCGGAGAAATCGTGTACAA 400 227 258 Antisense
Sequence Source Affymetrix Proprietary Database