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[179840_at]

Description F40F9.10 /REP_DB=WormBase Gene ID /WP=CE05859 /TR=Q20240 /GB=CAA94765.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 71      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 52      6grp_total > 71      4grp_total > 21      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 418
1 2 3 4 range
A 586.7
(0.7)
P 		415.6
(-1.8)
P 		335.1
(-3)
P 		745.6
(3)
P 		411
B 658.4
(1.7)
P 		372.5
(-2.4)
P 		332.8
(-3)
P 		751
(3)
P 		418
C 606.5
(1.3)
P 		546.8
(0.1)
P 		398.3
(-3)
P 		687.4
(3)
P 		289
avr 617.2
(1.2) 		445
(-1.6) 		355.4
(-3) 		728
(3) 		373

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 544
1 2 3 4 5 6 range
A 521.1
(-0.7)
P 		505.8
(-0.9)
P 		856.8
(3)
P 		782.3
(2.2)
P 		635.4
(0.6)
P 		312.6
(-3)
P 		544
B 595.1
(-0.4)
P 		671.4
(1.2)
P 		663.3
(1)
P 		759.2
(3)
P 		711.8
(2)
P 		465.8
(-3)
P 		293
C 392.8
(-2.3)
P 		679.4
(2.2)
P 		529.2
(-0.2)
P 		730.5
(3)
P 		464.4
(-1.2)
P 		348.1
(-3)
P 		382
avr 503
(-1) 		618.9
(0.8) 		683.1
(1.8) 		757.3
(3) 		603.9
(0.6) 		375.5
(-3) 		382
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 137
1 2 3 4 range
A 213.6
(3)
P 		90.2
(-2.9)
P 		87.6
(-3)
P 		109.1
(-2)
P 		126
B 209.9
(3)
P 		92
(-2.3)
P 		77.1
(-3)
P 		160
(0.7)
P 		133
C 200.8
(3)
P 		157.2
(-0.1)
P 		138.8
(-1.4)
P 		115.9
(-3)
P 		85
avr 208.1
(3) 		113.1
(-2.3) 		101.2
(-3) 		128.3
(-1.5) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 96.1
(-2)
P 		179.9
(2.1)
P 		186.6
(2.4)
P 		198.4
(3)
P 		191.7
(2.7)
P 		76.1
(-3)
P 		122
B 207.1
(-0.8)
P 		223.5
(-0.1)
P 		161.1
(-3)
P 		201.1
(-1.1)
P 		289.2
(3)
P 		173.7
(-2.4)
P 		128
C 145.6
(-1.1)
P 		207.3
(3)
P 		134.7
(-1.8)
P 		146.9
(-1)
P 		150.3
(-0.8)
P 		116.5
(-3)
P 		91
avr 149.6
(-1.1) 		203.6
(2.5) 		160.8
(-0.4) 		182.1
(1.1) 		210.4
(3) 		122.1
(-3) 		88
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179840_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12373
Sequence Type Exemplar sequence
Representative Public ID F40F9.10 NCBI
Target Description F40F9.10 /REP_DB=WormBase Gene ID /WP=CE05859 /TR=Q20240 /GB=CAA94765.1 /SUBMIT=HINXTON /CHR=5 /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_073101(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073101 NCBI Caenorhabditis elegans F40F9.10 (F40F9.10) mRNA, complete cds. 11/11 None
SNAP00000009251 ENSEMBL cdna:SNAP chromosome:CEL140:V:9714128:9716285:-1 11/11 None
GENEFINDER00000009267 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9714128:9716285:-1 11/11 None
F40F9.10 ENSEMBL cdna:known chromosome:CEL140:V:9714046:9716285:-1 gene:F40F9.10 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
chrV:9714127-9716285(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F40F9.10
Entrez Gene 179363 Entrez gene
SwissProt Q20240 EMBL-EBI
WormBase CE05859 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:255288_AT Met-10+ like family protein / kelch repeat-containing protein at
CANINE_2:CFAAFFX.2448.1.S1_AT similar to homolog of yeast tRNA methyltransferase cfa
CHICKEN:GGA.15389.1.S1_S_AT tRNA methyltranferase 12 homolog (S. cerevisiae) gga
HG-U133_PLUS_2:219299_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
HG-U133A:219299_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
HG-U133A_2:219299_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
HU35KSUBA:RC_AA608716_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
U133_X3P:G8923675_3P_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
HG-U95B:56077_AT tRNA methyltranferase 12 homolog (S. cerevisiae) hs
MG-U74BV2:106846_AT tRNA methyltranferase 12 homolog (S. cerevisiae) mm
MOE430B:1430537_AT tRNA methyltranferase 12 homolog (S. cerevisiae) mm
MOUSE430_2:1430537_AT tRNA methyltranferase 12 homolog (S. cerevisiae) mm
RAE230B:1385296_AT similar to RIKEN cDNA 4632406N01 (predicted) rn
RAT230_2:1385296_AT similar to RIKEN cDNA 4632406N01 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA94765 Hypothetical protein F40F9.10 [Caenorhabditis elegans] ref|NP_505502.1| F40F9.10 [Caenorhabditis elegans] 0.0
blast CAE72237 Hypothetical protein CBG19352 [Caenorhabditis briggsae] 1.0E-167
blast CAB80832 AT4g04670 [Arabidopsis thaliana] gb|AAD48952.1| contains similarity to Pfam family PF00145 (C-5 cytosine-specific DNA methylase); score=10.4. E=0.051, N=1 [Arabidopsis thaliana] 1.0E-42
Sequence
Target Sequence 
>C. ELEGANS:179840_AT
aacccttcctgtgttatctgcagttcatgaggactccaagccagaagttgaatcaacttc
cattccaaccgctccggaatcggatgagccatcggaaaataattcagagactaatggaac
agaaggtggacaaaagaagaaaaagtttagccgctcagcatcaattgtagaagaaatgga
aaaccgtgtgctgccagaagttaaaatatggaaagagtatgagaatgagggatgggccag
attgacagatagacatagggaattcgcaaaggactgtgcagatagctgtactcgtttcct
aaacaacattcatttgtctgatctcatgtattcagtgacggttgtcaatatgataagata
tggtgaagtatcgaaaggaaaggaacatattgtactggagttgttgtgctgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCCTTCCTGTGTTATCTGCAGTT 165 145 1047 Antisense
ATCTGCAGTTCATGAGGACTCCAAG 378 33 1062 Antisense
GGACTCCAAGCCAGAAGTTGAATCA 98 525 1077 Antisense
TTCCAACCGCTCCGGAATCGGATGA 630 697 1109 Antisense
TAGCCGCTCAGCATCAATTGTAGAA 373 651 1194 Antisense
GGAAAACCGTGTGCTGCCAGAAGTT 700 527 1224 Antisense
GGATGGGCCAGATTGACAGATAGAC 240 515 1276 Antisense
GCAGATAGCTGTACTCGTTTCCTAA 230 313 1324 Antisense
CAACATTCATTTGTCTGATCTCATG 424 189 1350 Antisense
GATCTCATGTATTCAGTGACGGTTG 449 419 1366 Antisense
TTGTACTGGAGTTGTTGTGCTGTCA 435 705 1436 Antisense
Sequence Source Affymetrix Proprietary Database