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[188039_at]

Description W02D3.8 /REP_DB=WormBase Gene ID /WP=CE25134 /GEN=smg-5 /TR=Q94994 /GB=AAK21489.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_high_8_8 > 20      6grp_highest_nonorm > 82      6grp_total > 95      4grp_total > 06      6grp_highest_sub > In      6grp_cgc > 78      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 155
1 2 3 4 range
A 259.6
(2)
P 		131.5
(-3)
A 		286.4
(3)
P 		255.3
(1.8)
P 		155
B 251.3
(2.2)
P 		218.9
(-0.1)
P 		177.3
(-3)
P 		262.7
(3)
P 		85
C 217.8
(-3)
P 		280.7
(3)
P 		229.2
(-1.9)
P 		264.7
(1.5)
P 		63
avr 242.9
(0.9) 		210.4
(-3) 		231
(-0.6) 		260.9
(3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 233
1 2 3 4 5 6 range
A 344.8
(0.5)
P 		303.5
(-1.1)
P 		256.4
(-3)
P 		335.8
(0.1)
P 		409
(3)
P 		318.1
(-0.6)
P 		153
B 246.5
(-2.3)
P 		220.6
(-3)
P 		362.9
(0.7)
P 		283.9
(-1.4)
P 		453.6
(3)
P 		393.4
(1.4)
P 		233
C 230.1
(-3)
P 		270.7
(-1.5)
P 		275
(-1.4)
P 		338.1
(1)
P 		278.3
(-1.2)
P 		393.5
(3)
P 		163
avr 273.8
(-2.5) 		264.9
(-3) 		298.1
(-1.3) 		319.3
(-0.2) 		380.3
(3) 		368.3
(2.4) 		115
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 94.5
(3)
P 		28.5
(-3)
A 		74.9
(1.2)
P 		37.4
(-2.2)
P 		66
B 80.1
(3)
P 		54.1
(-1)
P 		41.1
(-3)
P 		56
(-0.7)
P 		39
C 72.1
(1.6)
P 		80.7
(3)
P 		79.9
(2.9)
P 		44.6
(-3)
P 		36
avr 82.2
(3) 		54.4
(-1.6) 		65.3
(0.2) 		46
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 63.6
(-2.3)
P 		107.9
(1.6)
P 		55.8
(-3)
P 		85.2
(-0.4)
P 		123.4
(3)
P 		77.4
(-1.1)
P 		68
B 85.8
(-2.3)
P 		73.4
(-3)
P 		88.1
(-2.2)
P 		75.2
(-2.9)
P 		184.3
(3)
P 		146.7
(1)
P 		111
C 85.3
(-1.4)
P 		82.6
(-1.6)
P 		70
(-2.8)
P 		68
(-3)
P 		90
(-0.9)
P 		131.7
(3)
P 		64
avr 78.2
(-2.3) 		88
(-1.4) 		71.3
(-3) 		76.1
(-2.5) 		132.6
(3) 		118.6
(1.6) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188039_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1490
Sequence Type Exemplar sequence
Representative Public ID W02D3.8 NCBI
Target Description W02D3.8 /REP_DB=WormBase Gene ID /WP=CE25134 /GEN=smg-5 /TR=Q94994 /GB=AAK21489.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059528(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059528 NCBI Caenorhabditis elegans Suppressor with Morphological effect on Genitalia family member (smg-5) (smg-5) mRNA, complete cds. 11/11 None
GENEFINDER00000042735 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6741444:6744286:-1 11/11 None
SNAP00000042719 ENSEMBL cdna:SNAP chromosome:CEL140:I:6742316:6744286:-1 11/11 None
W02D3.8 ENSEMBL cdna:known chromosome:CEL140:I:6742186:6744295:-1 gene:W02D3.8 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
chrI:6742244-6744215(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol smg-5
Ensembl W02D3.8
Entrez Gene 172391 Entrez gene
SwissProt Q94994 EMBL-EBI
WormBase CE25134 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
4540 ribonuclease activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK21489 Suppressor with morphological effect on genitalia protein 5 [Caenorhabditis elegans] ref|NP_491929.1| Suppressor with Morphological effect on Genitalia family member (smg-5) [Caenorhabditis elegans] gb|AAB06457.1| nonsense-mediated mRNA decay protein gb|AAB06456.1| nonsense-mediated mRNA decay protein 0.0
blast T15208 hypothetical protein W02D3.8 - Caenorhabditis elegans 0.0
blast CAE60438 Hypothetical protein CBG04046 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:188039_AT
tgtcactcacaatcaatccatctatttctatgaccagctttctgctgaatggtccaatat
ccgaacccaatgttgaatttttgagtcaattaatcaattatctggtttccgtcgaattcc
caccaatggagataatccacgatagagaagaatcgggtccattgctacgacgaattaatc
aatcggaacaaaaacgtttggatattcaaataaagacacaaaatgatgaagttaaccggg
aggattggagacctgtttatgtattgatggattatgacgtcatagttgacaaaataagaa
ttgctctaaaaatttgggatatcgatgatttcatctgcattttgccatcaacagtgcttg
atgaacttgattatcagaaaacgaagaatcgagcagttcgtccagtaattcgggcattaa
tggagcttcaagcagagggaaaaattgtgctaaagaaatgtgataacgagagaagctgcg
cggagcaattggttcaaagtgcacgaagatctgcagaagatcacaagcatattgtcgctt
ttctgtgcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTCACTCACAATCAATCCATCTAT 419 559 1034 Antisense
CTATTTCTATGACCAGCTTTCTGCT 450 223 1055 Antisense
GCTTTCTGCTGAATGGTCCAATATC 591 303 1070 Antisense
GTCCAATATCCGAACCCAATGTTGA 155 477 1085 Antisense
TTATCTGGTTTCCGTCGAATTCCCA 334 679 1131 Antisense
AGAATCGGGTCCATTGCTACGACGA 473 75 1182 Antisense
TCATCTGCATTTTGCCATCAACAGT 345 621 1364 Antisense
GAGCAGTTCGTCCAGTAATTCGGGC 565 387 1424 Antisense
CGGGCATTAATGGAGCTTCAAGCAG 681 241 1444 Antisense
GAAGCTGCGCGGAGCAATTGGTTCA 473 343 1505 Antisense
GCATATTGTCGCTTTTCTGTGCAAA 313 309 1560 Antisense
Sequence Source Affymetrix Proprietary Database