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[189574_s_at]

Description C48B6.6 /REP_DB=WormBase Gene ID /WP=CE27869 /GEN=smg-1 /TR=O01510 /GB=AAC48167.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=kinase
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 07      4grp_highest_8_8 > 38      4grp_high_8_8 > 02      6grp_highest_nonorm > 81      6grp_total > 09      4grp_total > 06      6grp_cgc > 0      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 209
1 2 3 4 range
A 329.8
(2.7)
P 		132.6
(-3)
P 		200.5
(-1)
P 		341.2
(3)
P 		209
B 237.3
(0.1)
P 		173.9
(-2.2)
P 		150.5
(-3)
P 		320.9
(3)
P 		170
C 232.2
(-0.8)
P 		190.9
(-3)
P 		191.4
(-3)
P 		305.8
(3)
P 		115
avr 266.4
(0.8) 		165.8
(-3) 		180.8
(-2.4) 		322.6
(3) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 235
1 2 3 4 5 6 range
A 265.7
(0.1)
P 		283.7
(0.7)
P 		176.4
(-3)
P 		345.4
(2.9)
P 		246.1
(-0.6)
P 		349.3
(3)
P 		173
B 252.6
(1.9)
P 		214
(-0.3)
P 		167.3
(-3)
P 		271.2
(3)
P 		182.8
(-2.1)
P 		206
(-0.8)
P 		104
C 402.4
(3)
P 		305.9
(-0.6)
P 		302.6
(-0.7)
P 		286.9
(-1.3)
P 		270.5
(-1.9)
P 		239.6
(-3)
P 		163
avr 306.9
(3) 		267.9
(0.4) 		215.4
(-3) 		301.2
(2.6) 		233.1
(-1.8) 		265
(0.3) 		92
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 120.1
(3)
P 		28.8
(-3)
P 		52.4
(-1.4)
P 		49.9
(-1.6)
P 		91
B 75.7
(3)
P 		42.9
(-1.8)
P 		34.9
(-3)
P 		68.4
(1.9)
P 		41
C 76.9
(3)
P 		54.9
(-2.2)
P 		66.7
(0.6)
P 		51.6
(-3)
P 		25
avr 90.9
(3) 		42.2
(-3) 		51.3
(-1.9) 		56.6
(-1.2) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 49
(-2)
P 		100.9
(3)
P 		38.4
(-3)
P 		87.6
(1.7)
P 		74.3
(0.4)
P 		85.1
(1.5)
P 		63
B 87.9
(3)
P 		71.2
(0.9)
P 		40.6
(-3)
P 		71.8
(1)
P 		74.3
(1.3)
P 		76.8
(1.6)
P 		47
C 149.1
(3)
P 		93.3
(-0.7)
P 		77
(-1.7)
P 		57.7
(-3)
P 		87.5
(-1)
P 		80.2
(-1.5)
P 		91
avr 95.3
(3) 		88.5
(2.1) 		52
(-3) 		72.4
(-0.2) 		78.7
(0.7) 		80.7
(1) 		43
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189574_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2084
Sequence Type Exemplar sequence
Representative Public ID C48B6.6 NCBI
Target Description C48B6.6 /REP_DB=WormBase Gene ID /WP=CE27869 /GEN=smg-1 /TR=O01510 /GB=AAC48167.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=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_001025882(11), NM_001025883(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001025882 NCBI Caenorhabditis elegans C48B6.6a (kinase) mRNA, complete cds. 11/11 None
NM_001025883 NCBI Caenorhabditis elegans C48B6.6b (kinase) mRNA, complete cds. 9/11 None
SNAP00000029804 ENSEMBL cdna:SNAP chromosome:CEL140:I:6909681:6917346:-1 11/11 None
GENEFINDER00000029812 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6909681:6921683:-1 11/11 None
C48B6.6a ENSEMBL cdna:known chromosome:CEL140:I:6909083:6921711:-1 gene:C48B6.6 11/11 A 
C48B6.6b ENSEMBL cdna:known chromosome:CEL140:I:6909104:6921683:-1 gene:C48B6.6 9/11 A 
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
chrI:6909611-6917277(-) 100.0 100.0
Public Domain and Genome References
Ensembl C48B6.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD48773 nonsense-mediated mRNA decay protein SMG-1 [Caenorhabditis elegans] ref|NP_001021053.1| C48B6.6a [Caenorhabditis elegans] gb|AAC48167.3| Suppressor with morphological effect on genitalia protein 1, isoform a [Caenorhabditis elegans] 0.0
blast NP_001021054 C48B6.6b [Caenorhabditis elegans] gb|AAT68901.1| Suppressor with morphological effect on genitalia protein 1, isoform b [Caenorhabditis elegans] 0.0
blast CAE67287 Hypothetical protein CBG12735 [Caenorhabditis briggsae] 0.0
blast T28923 hypothetical protein C48B6.6 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000403 EMBL-EBI Phosphatidylinositol 3- and 4-kinase 1.4E-47
Pfam IPR000403 EMBL-EBI Phosphatidylinositol 3- and 4-kinase 6.0E-21
Pfam IPR003152 EMBL-EBI PIK-related kinase, FATC 2.4E-10
Pfam IPR000403 EMBL-EBI Phosphatidylinositol 3- and 4-kinase 1.6E-94
Pfam IPR003152 EMBL-EBI PIK-related kinase, FATC 2.4E-10
Pfam IPR000403 EMBL-EBI Phosphatidylinositol 3- and 4-kinase 2.4E-102
Pfam IPR003152 EMBL-EBI PIK-related kinase, FATC 2.4E-10
Pfam IPR000403 EMBL-EBI Phosphatidylinositol 3- and 4-kinase 5.6E-20
Pfam IPR003152 EMBL-EBI PIK-related kinase, FATC 2.4E-10
Sequence
Target Sequence 
>C. ELEGANS:189574_S_AT
tgtgacacgtcatcatgcacttgccaaagagcttcgtccattgataagagtaattggaaa
ggaacgagaagagtttgcagattatttgaagttttacaagcaggcattatttgatccact
tttgaaaggacactcggctctccgtaacgaactcgatattgatacatgtgtgtacaattt
caacattgtcatgcaaaatatagataatgtgtttggagcactcgtcaatctgtcattcac
cccgattgagactattacatcccgtacttcacagcaagaattcaaaccacctcccggact
tgaaaatgtatgggttgtgaaacaagatcaacaggagaattctcaagcgcgtgaagttgt
ccgacgtgttgaacggcgtctcaacggatggctcgatggatcggcaggaccagataggaa
attgtctcctcgcgaagaggccgacatcctaatcgctgaagctacatccacaccaaattt
a

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGACACGTCATCATGCACTTGCC 242 555 4488 Antisense
TGCACTTGCCAAAGAGCTTCGTCCA 633 577 4503 Antisense
GCAGGCATTATTTGATCCACTTTTG 410 311 4587 Antisense
TCGGCTCTCCGTAACGAACTCGATA 8 607 4621 Antisense
TTGGAGCACTCGTCAATCTGTCATT 304 709 4700 Antisense
TACATCCCGTACTTCACAGCAAGAA 234 645 4743 Antisense
ACAGCAAGAATTCAAACCACCTCCC 314 109 4758 Antisense
AGCGCGTGAAGTTGTCCGACGTGTT 417 81 4833 Antisense
TGAACGGCGTCTCAACGGATGGCTC 262 571 4857 Antisense
CGAAGAGGCCGACATCCTAATCGCT 539 251 4920 Antisense
TGAAGCTACATCCACACCAAATTTA 23 573 4944 Antisense
Sequence Source Affymetrix Proprietary Database