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[186513_at]

Description Y40D12A.1 /REP_DB=WormBase Gene ID /WP=CE19620 /TR=O76726 /GB=AAC26945.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 76      6grp_highest_nonorm > 90      6grp_total > 66      4grp_total > 47      6grp_highest_sub > Da      6grp_high1_sub > Da      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 152.9
(3)
P 		63.8
(-2.6)
A 		58
(-3)
P 		72
(-2.1)
P 		95
B 197.9
(3)
P 		65.3
(-3)
A 		69.3
(-2.8)
P 		97.4
(-1.5)
P 		133
C 123.8
(3)
P 		63.2
(-3)
A 		101
(0.7)
P 		64.6
(-2.9)
P 		61
avr 158.2
(3) 		64.1
(-3) 		76.1
(-2.2) 		78
(-2.1) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 131.8
(-2.3)
P 		128.3
(-2.5)
P 		125.4
(-2.7)
P 		130.4
(-2.4)
P 		119.6
(-3)
P 		224.3
(3)
P 		105
B 95.6
(-3)
P 		138.3
(-0.9)
P 		136.6
(-1)
P 		154.5
(-0.1)
P 		115.4
(-2)
P 		217.1
(3)
P 		122
C 89.3
(-3)
P 		141.2
(0)
P 		98.4
(-2.5)
P 		117.7
(-1.3)
P 		90.4
(-2.9)
P 		191.9
(3)
P 		103
avr 105.6
(-3) 		135.9
(-1.3) 		120.1
(-2.2) 		134.2
(-1.4) 		108.5
(-2.8) 		211.1
(3) 		106
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 55.7
(3)
P 		13.8
(-2.6)
A 		15.2
(-2.4)
P 		10.5
(-3)
P 		45
B 63.1
(3)
P 		16.1
(-3)
A 		16
(-3)
P 		20.8
(-2.4)
P 		47
C 41
(3)
P 		18.2
(-1.5)
A 		35.2
(1.8)
P 		10.9
(-3)
P 		30
avr 53.3
(3) 		16
(-2.7) 		22.1
(-1.8) 		14.1
(-3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 24.3
(-3)
P 		45.6
(1.2)
P 		27.3
(-2.4)
P 		33.1
(-1.3)
P 		36.1
(-0.7)
P 		54.6
(3)
P 		30
B 33.3
(-3)
P 		46
(-1.4)
P 		33.2
(-3)
P 		40.9
(-2)
P 		46.9
(-1.3)
P 		80.9
(3)
P 		48
C 33.1
(-1.6)
P 		43.1
(-0.1)
P 		25
(-2.8)
P 		23.7
(-3)
P 		29.3
(-2.2)
P 		64.2
(3)
P 		41
avr 30.2
(-2.7) 		44.9
(-0.4) 		28.5
(-3) 		32.6
(-2.4) 		37.4
(-1.6) 		66.6
(3) 		38
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186513_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8021
Sequence Type Exemplar sequence
Representative Public ID Y40D12A.1 NCBI
Target Description Y40D12A.1 /REP_DB=WormBase Gene ID /WP=CE19620 /TR=O76726 /GB=AAC26945.1 /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_066060(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066060 NCBI Caenorhabditis elegans Y40D12A.1a (Y40D12A.1) mRNA, complete cds. 11/11 None
Y40D12A.1a ENSEMBL cdna:known chromosome:CEL140:III:6615366:6619980:1 gene:Y40D12A.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000006907 1/11 Cross Hyb Matching Probes None
SNAP00000007326 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
182563 2 1 NM_066060 186513_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6615364-6619366(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y40D12A.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC26945 Hypothetical protein Y40D12A.1a [Caenorhabditis elegans] ref|NP_498461.2| Y40D12A.1a [Caenorhabditis elegans] 0.0
blast AAN84813 Hypothetical protein Y40D12A.1b [Caenorhabditis elegans] ref|NP_871664.1| Y40D12A.1b [Caenorhabditis elegans] 1.0E-139
blast CAE69164 Hypothetical protein CBG15196 [Caenorhabditis briggsae] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR002877 EMBL-EBI Ribosomal RNA methyltransferase RrmJ/FtsJ 4.5E-65
Sequence
Target Sequence 
>C. ELEGANS:186513_AT
tttactgcagaaagccgctacttctgtcgtgagcttcaaagcatgtttccaagtggttcc
tctcgatcatcaagtccatggatgcggttatatggtcataatttgatacgaagaaataat
cccgaagatttaaaaatttctatcaatcgatacattctgacggctgacatctttgatcca
gactaccaaaagttagatgttgaacaaattgtcgcaaggattatggatcaagaagaaatt
ctgacaacgagtgacatccaattacgaaccattgattcattattcgttgatcctattgca
ctcaaacaaatgttatcacataattcaaagatatactacgatctcctcgaaaaagtttcc
acaaagaattcggcagatgaatgtgattggaggaaaaatttcagtaatagtaaccggaat
tacacgttgaaattggatacaaatgtaaccatcgagcatattttagccgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTACTGCAGAAAGCCGCTACTTCT 673 673 1099 Antisense
GCTACTTCTGTCGTGAGCTTCAAAG 209 303 1115 Antisense
AGCATGTTTCCAAGTGGTTCCTCTC 490 77 1138 Antisense
TTCCTCTCGATCATCAAGTCCATGG 430 699 1155 Antisense
CAATCGATACATTCTGACGGCTGAC 383 179 1242 Antisense
GACGGCTGACATCTTTGATCCAGAC 62 377 1257 Antisense
GAAATTCTGACAACGAGTGACATCC 603 363 1333 Antisense
GAGTGACATCCAATTACGAACCATT 415 399 1347 Antisense
ATTATTCGTTGATCCTATTGCACTC 211 13 1377 Antisense
GATATACTACGATCTCCTCGAAAAA 386 423 1428 Antisense
AACCATCGAGCATATTTTAGCCGCA 322 147 1545 Antisense
Sequence Source Affymetrix Proprietary Database