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[177180_s_at]

Description Y73B6BL.K /REP_DB=WormBase Gene ID /WP=CE26284 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAG23470.1
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 65      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 82      6grp_total > 56      4grp_total > 14      6grp_cgc > 37      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 297
1 2 3 4 range
A 348
(2.7)
P 		260.4
(-0.9)
P 		209.7
(-3)
P 		354.8
(3)
P 		145
B 313
(-0.2)
P 		196.1
(-2.5)
P 		172.3
(-3)
P 		468.8
(3)
P 		297
C 417.7
(2.8)
P 		202.2
(-3)
P 		264.5
(-1.3)
P 		424.5
(3)
P 		222
avr 359.6
(1.3) 		219.6
(-2.9) 		215.5
(-3) 		416
(3) 		201

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 303
1 2 3 4 5 6 range
A 253.6
(-1.5)
P 		342.6
(1.8)
P 		348.6
(2)
P 		342.8
(1.8)
P 		211.2
(-3)
P 		376.6
(3)
P 		165
B 350.5
(-1.1)
P 		283.3
(-2.8)
P 		295
(-2.5)
P 		275.2
(-3)
P 		277.9
(-2.9)
P 		514.6
(3)
P 		239
C 277.7
(-1.6)
P 		381.4
(1.2)
P 		359.7
(0.6)
P 		258.8
(-2.1)
P 		227.3
(-3)
P 		447.2
(3)
P 		220
avr 293.9
(-1.4) 		335.8
(-0.2) 		334.4
(-0.2) 		292.3
(-1.5) 		238.8
(-3) 		446.1
(3) 		207
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 126.7
(3)
P 		56.5
(-2.6)
P 		54.8
(-2.8)
P 		51.9
(-3)
P 		75
B 99.8
(3)
P 		48.4
(-2.2)
P 		39.9
(-3)
P 		99.9
(3)
P 		60
C 138.3
(3)
P 		58.1
(-3)
P 		92.2
(-0.4)
P 		71.6
(-2)
P 		80
avr 121.6
(3) 		54.3
(-3) 		62.3
(-2.3) 		74.5
(-1.2) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 46.7
(-3)
P 		121.9
(3)
P 		75.9
(-0.7)
P 		86.9
(0.2)
P 		63.7
(-1.6)
P 		91.7
(0.6)
P 		75
B 122
(-0.5)
P 		94.3
(-1.9)
P 		71.6
(-3)
P 		72.9
(-2.9)
P 		112.9
(-0.9)
P 		191.9
(3)
P 		120
C 102.9
(0.1)
P 		116.4
(1)
P 		91.6
(-0.6)
P 		52
(-3)
P 		73.6
(-1.7)
P 		149.7
(3)
P 		98
avr 90.5
(-1.4) 		110.9
(0.3) 		79.7
(-2.3) 		70.6
(-3) 		83.4
(-2) 		144.4
(3) 		74
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177180_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19335
Sequence Type Exemplar sequence
Representative Public ID Y73B6BL.K NCBI
Target Description Y73B6BL.K /REP_DB=WormBase Gene ID /WP=CE26284 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAG23470.1
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_068573(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068573 NCBI Caenorhabditis elegans Suppressor with Morphological effect on Genitalia family member (smg-3) (smg-3) mRNA, complete cds. 11/11 A 
SNAP00000032048 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6365389:6365850:-1 11/11 None
GENEFINDER00000032091 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6364863:6373071:-1 11/11 None
Y73B6BL.18.1 ENSEMBL cdna:known chromosome:CEL140:IV:6362420:6373071:-1 gene:Y73B6BL.18 11/11 A 
Y73B6BL.18.2 ENSEMBL cdna:known chromosome:CEL140:IV:6362472:6373071:-1 gene:Y73B6BL.18 11/11 A 
Y73B6BL.18.3 ENSEMBL cdna:known chromosome:CEL140:IV:6362477:6373071:-1 gene:Y73B6BL.18 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
chrIV:6365394-6365856(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol smg-3
Ensembl Y73B6BL.18
Entrez Gene 177397 Entrez gene
SwissProt Q95XD2 EMBL-EBI
WormBase CE29923 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK68590 Suppressor with morphological effect on genitalia protein 3 [Caenorhabditis elegans] ref|NP_500974.2| Suppressor with Morphological effect on Genitalia family member (smg-3) [Caenorhabditis elegans] 0.0
blast CAE61554 Hypothetical protein CBG05463 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 4.4E-5
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 4.3E-9
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 8.2E-5
Sequence
Target Sequence 
>C. ELEGANS:177180_S_AT
ctgtaaaagacgagccagcggcttcaagctctaagcaagataacgacgatgatgaggatg
tctatgagaaatctcccacaatcgcagcttctggacgtcaaaagcaaactcgtgtcacgc
tgatggtccgcggaaaaacgaacaaaccatcgttaaagactgtcaacatcgacgatgatc
agcttcaggaacgttggaaagaagaaaaagctcgcgaagagcaggaacgtgccgatatga
aacgattgactcttggacaacatcgtag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGTAAAAGACGAGCCAGCGGCTTC 434 239 35 Antisense
GCCAGCGGCTTCAAGCTCTAAGCAA 73 281 48 Antisense
TATGAGAAATCTCCCACAATCGCAG 1 657 97 Antisense
CACAATCGCAGCTTCTGGACGTCAA 702 193 111 Antisense
CAAAAGCAAACTCGTGTCACGCTGA 449 189 133 Antisense
TGTCACGCTGATGGTCCGCGGAAAA 337 559 147 Antisense
AACCATCGTTAAAGACTGTCAACAT 333 147 179 Antisense
AACATCGACGATGATCAGCTTCAGG 84 139 199 Antisense
GATCAGCTTCAGGAACGTTGGAAAG 283 421 211 Antisense
GTGCCGATATGAAACGATTGACTCT 616 477 263 Antisense
GATTGACTCTTGGACAACATCGTAG 201 433 278 Antisense
Sequence Source Affymetrix Proprietary Database