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[175829_s_at]

Description g5731102 /REP_DB=GenBank Identifier /GB=AF149821.1 /PROTEIN_GB=AAD48773.1 /CHR=1 /FEA=Mapped Transcript /DEF=nonsense-mediated mRNA decay protein SMG-1
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 39      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 81      6grp_total > 38      4grp_total > 14      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 259
1 2 3 4 range
A 330.3
(1)
P 		169.2
(-3)
P 		168.6
(-3)
P 		412.7
(3)
P 		244
B 298.7
(1.1)
P 		158.2
(-2.9)
P 		153.5
(-3)
P 		364
(3)
P 		211
C 302.3
(0.8)
P 		180.3
(-3)
P 		219.2
(-1.8)
P 		371
(3)
P 		191
avr 310.4
(1) 		169.2
(-3) 		180.4
(-2.7) 		382.6
(3) 		213

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 259
1 2 3 4 5 6 range
A 308.7
(0.6)
P 		340.5
(1.7)
P 		212.4
(-3)
P 		375.1
(3)
P 		309.4
(0.6)
P 		370.3
(2.8)
P 		163
B 333
(3)
P 		277.6
(0.8)
P 		182.9
(-3)
P 		220.3
(-1.5)
P 		252.4
(-0.2)
P 		307.9
(2)
P 		150
C 442
(3)
P 		347.1
(-0.2)
P 		343.4
(-0.3)
P 		264.9
(-3)
P 		329.1
(-0.8)
P 		292.8
(-2.1)
P 		177
avr 361.2
(3) 		321.7
(0.9) 		246.2
(-3) 		286.8
(-0.9) 		297
(-0.3) 		323.7
(1) 		115
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 120.3
(3)
P 		36.7
(-3)
P 		44.1
(-2.5)
P 		60.4
(-1.3)
P 		84
B 95.2
(3)
P 		39.1
(-2.6)
P 		35.6
(-3)
P 		77.6
(1.2)
P 		60
C 100.1
(3)
P 		51.8
(-3)
P 		76.4
(0.1)
P 		62.6
(-1.7)
P 		48
avr 105.2
(3) 		42.5
(-3) 		52
(-2.1) 		66.9
(-0.7) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 119
1 2 3 4 5 6 range
A 56.9
(-2.1)
P 		121.1
(3)
P 		46.3
(-3)
P 		95.1
(0.9)
P 		93.4
(0.8)
P 		90.1
(0.5)
P 		75
B 115.9
(3)
P 		92.4
(1)
P 		44.4
(-3)
P 		58.4
(-1.8)
P 		102.5
(1.9)
P 		114.8
(2.9)
P 		72
C 163.8
(3)
P 		105.9
(-0.1)
P 		87.4
(-1.1)
P 		53.3
(-3)
P 		106.5
(-0.1)
P 		98
(-0.6)
P 		111
avr 112.2
(3) 		106.5
(2.4) 		59.4
(-3) 		68.9
(-1.9) 		100.8
(1.7) 		101
(1.7) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175829_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19643
Sequence Type Exemplar sequence
Representative Public ID 5731102 NCBI
Target Description g5731102 /REP_DB=GenBank Identifier /GB=AF149821.1 /PROTEIN_GB=AAD48773.1 /CHR=1 /FEA=Mapped Transcript /DEF=nonsense-mediated mRNA decay protein SMG-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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(11)
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. 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 11/11 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:6909013-6921642(-) 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
Protein Domains
Database ID Description E-Value
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:175829_S_AT
cacgtgtcatagtccgttctacttcttcataattatccagaagcatgcaacttctgtttg
attttgaagttcagttgatcagggcgtggactcacgatattcggggatgtcttgtatcac
cttcgtgatgtttgtaattcgccgctcgttcagccttcacataaaaccgtcctccatctg
tctcttccgctatttgttcagaaatcgtcaaaattggatagtcggactatttgacagctt
ctggagcaattcaacaatcggtctcctctccccaaccaaaaattctttgacttgaagagt
cattccatttccaaaaaccacaatttttcttaacaaattattcaattagttgcattcaac
tcatactctcccccgatcaccacacttttctccaatattcttacccatgtttatgcccta
tttctcgaacttctaatacgtattttttcatgttttttttcacactactcccggccttct
tctgaatagttttcccccgaaagaagaccatgcttttgtttcttatttggatattacctc
gttccatacgcata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACGTGTCATAGTCCGTTCTACTTC 461 199 7021 Antisense
CAGTTGATCAGGGCGTGGACTCACG 594 205 7092 Antisense
TTCGGGGATGTCTTGTATCACCTTC 407 695 7120 Antisense
TCGTGATGTTTGTAATTCGCCGCTC 669 605 7143 Antisense
TTCAGCCTTCACATAAAACCGTCCT 92 687 7169 Antisense
TGTCTCTTCCGCTATTTGTTCAGAA 140 559 7199 Antisense
GAGCAATTCAACAATCGGTCTCCTC 345 391 7264 Antisense
AGTTGCATTCAACTCATACTCTCCC 319 65 7368 Antisense
CTTTTCTCCAATATTCTTACCCATG 263 223 7405 Antisense
TTATGCCCTATTTCTCGAACTTCTA 282 681 7431 Antisense
GATATTACCTCGTTCCATACGCATA 437 427 7550 Antisense
Sequence Source GenBank