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[188509_s_at]

Description F54C8.3 /REP_DB=WormBase Gene ID /WP=CE26428 /GEN=emb-30 /TR=SW:P34441 /GB=CAA80159.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 43      4grp_high_8_8 > 48      6grp_highest_nonorm > 83      6grp_total > 56      4grp_total > 55      6grp_cgc > 37      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 372
1 2 3 4 range
A 538.9
(3)
P 		383.1
(-0.2)
P 		357.8
(-0.8)
P 		250.3
(-3)
P 		289
B 526.6
(3)
P 		248.2
(-3)
P 		348.2
(-0.8)
P 		339.1
(-1)
P 		278
C 601.8
(3)
P 		230
(-3)
P 		378.3
(-0.6)
P 		299.6
(-1.9)
P 		372
avr 555.8
(3) 		287.1
(-3) 		361.4
(-1.3) 		296.3
(-2.8) 		269

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 352
1 2 3 4 5 6 range
A 340.7
(-2)
P 		515.6
(1.1)
P 		285.9
(-3)
P 		426.3
(-0.5)
P 		297.7
(-2.8)
P 		618.3
(3)
P 		332
B 379.1
(-1.4)
P 		374.6
(-1.5)
P 		440.1
(-0.4)
P 		411.7
(-0.9)
P 		286.4
(-3)
P 		637.9
(3)
P 		352
C 422.6
(-1.2)
P 		447.4
(-0.6)
P 		554.3
(1.8)
P 		440.5
(-0.8)
P 		341.4
(-3)
P 		608.5
(3)
P 		267
avr 380.8
(-1.6) 		445.9
(-0.4) 		426.8
(-0.7) 		426.2
(-0.7) 		308.5
(-3) 		621.6
(3) 		313
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 163
1 2 3 4 range
A 196.2
(3)
P 		83.2
(-1.2)
P 		93.5
(-0.9)
P 		36.6
(-3)
P 		160
B 167.9
(3)
P 		61.3
(-3)
P 		80.7
(-1.9)
P 		72.3
(-2.4)
P 		107
C 199.2
(3)
P 		66.1
(-2.4)
P 		131.9
(0.3)
P 		50.5
(-3)
P 		149
avr 187.8
(3) 		70.2
(-2.2) 		102
(-0.8) 		53.1
(-3) 		135

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 62.8
(-3)
P 		183.4
(3)
P 		62.3
(-3)
P 		108.1
(-0.7)
P 		89.8
(-1.6)
P 		150.5
(1.4)
P 		121
B 131.9
(-1.9)
P 		124.7
(-2.2)
P 		106.9
(-3)
P 		109.1
(-2.9)
P 		116.4
(-2.6)
P 		237.9
(3)
P 		131
C 156.6
(0.5)
P 		136.5
(-0.5)
P 		141.1
(-0.3)
P 		88.6
(-3)
P 		110.5
(-1.9)
P 		203.7
(3)
P 		115
avr 117.1
(-2) 		148.2
(-0.1) 		103.4
(-2.9) 		101.9
(-3) 		105.6
(-2.8) 		197.4
(3) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188509_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7767
Sequence Type Exemplar sequence
Representative Public ID F54C8.3 NCBI
Target Description F54C8.3 /REP_DB=WormBase Gene ID /WP=CE26428 /GEN=emb-30 /TR=SW:P34441 /GB=CAA80159.2 /SUBMIT=HINXTON /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_066673(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066673 NCBI Caenorhabditis elegans abnormal EMBroygenesis family member (emb-30) (emb-30) mRNA, complete cds. 11/11 A 
SNAP00000014860 ENSEMBL cdna:SNAP chromosome:CEL140:III:9435560:9441354:-1 11/11 None
GENEFINDER00000014870 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9435560:9439752:-1 11/11 None
F54C8.3 ENSEMBL cdna:known chromosome:CEL140:III:9434979:9441356:-1 gene:F54C8.3 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
chrIII:9435555-9441350(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol emb-30
Ensembl F54C8.3
Entrez Gene 176322 Entrez gene
SwissProt P34441 EMBL-EBI
WormBase CE32676 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA80159 Hypothetical protein F54C8.3 [Caenorhabditis elegans] ref|NP_499074.2| abnormal EMBroygenesis family member (emb-30) [Caenorhabditis elegans] gb|AAF24233.1| emb-30 protein [Caenorhabditis elegans] sp|P34441|EMB30_CAEEL Abnormal embryogenesis protein 0.0
blast G88554 protein F54C8.3 [imported] - Caenorhabditis elegans 0.0
blast CAE65218 Hypothetical protein CBG10093 [Caenorhabditis briggsae] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000014870 1 429-451
Sequence
Target Sequence 
>C. ELEGANS:188509_S_AT
agcgccgagaatagaccaccaggggaaactgatgcaatggaagtggatagtaacgagctg
agaattgatgtggatcttggaccagtggtacctgagtacgatactctcatcgaattgagt
caagttcacccccttcatcatggagaacttgttttattgggaaaattcacatccgcacag
gaaggaactggcgtgatgtcacaaatgatgcgatcaatatcttcatatcctcatgaaatc
ccagaagataaagatgtatttgcaaagaatagctctgaagatggaagttcagaaattcca
atcgaaaccttaataattcatccaacaattcaactggctgcctatcttcacgatgacgga
agtaaaatcacgattggagacatgaaaccagaggttccaccgatcgctgactatgaggag
aagactgttcgaaaaactttccgcgactatcagagac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCGCCGAGAATAGACCACCAGGGG 377 81 2497 Antisense
TGTGGATCTTGGACCAGTGGTACCT 335 555 2565 Antisense
GGTACCTGAGTACGATACTCTCATC 64 505 2583 Antisense
GAAAATTCACATCCGCACAGGAAGG 273 353 2657 Antisense
GGAAGGAACTGGCGTGATGTCACAA 188 533 2676 Antisense
GCGATCAATATCTTCATATCCTCAT 61 291 2706 Antisense
CATATCCTCATGAAATCCCAGAAGA 523 213 2720 Antisense
TCAACTGGCTGCCTATCTTCACGAT 222 631 2826 Antisense
TGAAACCAGAGGTTCCACCGATCGC 362 573 2879 Antisense
CCACCGATCGCTGACTATGAGGAGA 175 275 2893 Antisense
AAAACTTTCCGCGACTATCAGAGAC 38 131 2929 Antisense
Sequence Source Affymetrix Proprietary Database