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[188523_at]

Description R13F6.9 /REP_DB=WormBase Gene ID /WP=CE25974 /GEN=sma-3 /TR=SW:P45896 /GB=AAC47050.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 02      4grp_highest_8_8 > 43      4grp_high_8_8 > 48      6grp_highest_nonorm > 73      6grp_total > 34      4grp_total > 55      6grp_highest_sub > 01_02_03      6grp_cgc > 34      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 344
1 2 3 4 range
A 686.8
(3)
P 		418.6
(-3)
P 		511.3
(-0.9)
P 		560.7
(0.2)
P 		268
B 753.2
(3)
P 		408.8
(-3)
P 		527.5
(-0.9)
P 		439.6
(-2.5)
P 		344
C 650.1
(3)
P 		526.1
(-1.2)
P 		565.4
(0.1)
P 		472.7
(-3)
P 		177
avr 696.7
(3) 		451.2
(-3) 		534.7
(-1) 		491
(-2) 		246

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 384
1 2 3 4 5 6 range
A 627.8
(3)
P 		507.3
(-0.6)
P 		569.4
(1.3)
P 		455
(-2.2)
P 		489.3
(-1.1)
P 		426.9
(-3)
P 		201
B 634.3
(0.3)
P 		590.7
(-0.7)
P 		750.6
(3)
P 		492.9
(-3)
P 		592.8
(-0.7)
P 		520.2
(-2.4)
P 		258
C 490.1
(-0.4)
P 		647.3
(3)
P 		482.8
(-0.5)
P 		545.3
(0.8)
P 		366.8
(-3)
P 		589
(1.8)
P 		281
avr 584.1
(2.1) 		581.8
(2) 		600.9
(3) 		497.7
(-2.3) 		483
(-3) 		512
(-1.5) 		118
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 170
1 2 3 4 range
A 250
(3)
P 		90.9
(-2.7)
P 		133.7
(-1.2)
P 		82.1
(-3)
P 		168
B 240.2
(3)
P 		101
(-2.7)
P 		122.2
(-1.8)
P 		93.7
(-3)
P 		147
C 215.2
(3)
P 		151.3
(0.2)
P 		197.1
(2.2)
P 		79.7
(-3)
P 		136
avr 235.1
(3) 		114.4
(-1.8) 		151
(-0.4) 		85.2
(-3) 		150

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 115.7
(-2.1)
P 		180.4
(3)
P 		124
(-1.4)
P 		115.4
(-2.1)
P 		147.7
(0.4)
P 		103.9
(-3)
P 		77
B 220.7
(1.9)
P 		196.6
(0.6)
P 		182.3
(-0.2)
P 		130.6
(-3)
P 		240.8
(3)
P 		194
(0.5)
P 		110
C 181.7
(1.9)
P 		197.5
(3)
P 		122.9
(-2.1)
P 		109.7
(-3)
P 		118.7
(-2.4)
P 		197.2
(3)
P 		88
avr 172.7
(1.5) 		191.5
(3) 		143.1
(-1) 		118.6
(-3) 		169.1
(1.2) 		165
(0.8) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188523_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7578
Sequence Type Exemplar sequence
Representative Public ID R13F6.9 NCBI
Target Description R13F6.9 /REP_DB=WormBase Gene ID /WP=CE25974 /GEN=sma-3 /TR=SW:P45896 /GB=AAC47050.1 /SUBMIT=ST.LOUIS /CHR=3 /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_066092(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066092 NCBI Caenorhabditis elegans SMAll family member (sma-3) (sma-3) mRNA, complete cds. 11/11 None
GENEFINDER00000003266 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6861013:6863896:-1 10/11 None
SNAP00000003263 ENSEMBL cdna:SNAP chromosome:CEL140:III:6861024:6863896:-1 11/11 None
R13F6.9 ENSEMBL cdna:known chromosome:CEL140:III:6860896:6863902:-1 gene:R13F6.9 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:6861022-6863895(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sma-3
Ensembl R13F6.9
Entrez Gene 175955 Entrez gene
SwissProt P45896 EMBL-EBI
WormBase CE25974 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_498493 SMAll family member (sma-3) [Caenorhabditis elegans] gb|AAC47050.2| Small protein 3 [Caenorhabditis elegans] sp|P45896|SMA3_CAEEL Dwarfin sma-3 (MAD protein homolog 2) gb|AAA97607.1| member of the dwarfin family; Method: conceptual translation supplied by author 0.0
blast T16750 hypothetical protein R13F6.9 - Caenorhabditis elegans 0.0
blast CAE70098 Hypothetical protein CBG16541 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003619 EMBL-EBI Dwarfin protein, domain A 2.2E-59
Pfam IPR001132 EMBL-EBI Dwarfin protein 2.7E-112
Pfam IPR001132 EMBL-EBI Dwarfin protein 1.1E-99
Sequence
Target Sequence 
>C. ELEGANS:188523_AT
caaatcctgggcccaaattacgtattttgagttgaattcgagagttggagaagtttttaa
actagtgaatctgagcattacagtcgacggatatactaatccatcaaattcaaatacaag
aatatgtcttggacaattaaccaatgtgaatcgaaatggaacaattgagaacacacggat
gcatattggaaaaggaattcagcttgataataaagaagatcaaatgcatattatgattac
aaataactctgatatgccagtttttgtgcaatccaaaaatacgaatctcatgatgaacat
gccactggtcaaagtctgccgaataccaccgcacagtcaattatgcgtttttgagtttaa
tttattttttcaaatgttggaacagtcgtgcaacgatagcgatggattgaatgaactctc
caaacactgttttattcgtatttcttttgtaaagggctggggagaagattatccacgtca
agacgtcacatccacgccttgctggcttgaacttcggctcaatgtgccactggcttatat
cgatcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAATCCTGGGCCCAAATTACGTAT 425 173 594 Antisense
GAATCTGAGCATTACAGTCGACGGA 249 329 660 Antisense
GAGAACACACGGATGCATATTGGAA 253 393 760 Antisense
GATATGCCAGTTTTTGTGCAATCCA 400 425 844 Antisense
GAACATGCCACTGGTCAAAGTCTGC 256 351 888 Antisense
GGTCAAAGTCTGCCGAATACCACCG 674 501 900 Antisense
GAATACCACCGCACAGTCAATTATG 295 327 914 Antisense
GAATGAACTCTCCAAACACTGTTTT 239 331 1002 Antisense
GAGAAGATTATCCACGTCAAGACGT 259 391 1055 Antisense
GCTTGAACTTCGGCTCAATGTGCCA 513 305 1098 Antisense
GTGCCACTGGCTTATATCGATCAAA 456 477 1117 Antisense
Sequence Source Affymetrix Proprietary Database