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[193461_at]

Description F54C9.6 /REP_DB=WormBase Gene ID /WP=CE02256 /TR=Q20755 /GB=CAA90252.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=ATP-binding protein (CDC48-PAS1-SEC18 family)
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 67      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 84      6grp_total > 57      4grp_total > 61      6grp_highest_sub > Cu      6grp_high1_sub > Da      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 385
1 2 3 4 range
A 562
(2.4)
P 		511.6
(0.9)
P 		580.9
(3)
P 		381.5
(-3)
P 		199
B 661.8
(3)
P 		514.3
(0.7)
P 		591.9
(1.9)
P 		276.5
(-3)
P 		385
C 595.1
(3)
P 		500.8
(0.6)
P 		542.3
(1.6)
P 		361.6
(-3)
P 		234
avr 606.3
(3) 		508.9
(0.8) 		571.7
(2.2) 		339.9
(-3) 		266

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 628.6
(-0.1)
P 		526
(-1.7)
P 		446.4
(-3)
P 		555.4
(-1.3)
P 		453.4
(-2.9)
P 		826.1
(3)
P 		380
B 499.7
(-1.6)
P 		540.3
(-0.8)
P 		431.6
(-3)
P 		436.7
(-2.9)
P 		489.4
(-1.8)
P 		729.9
(3)
P 		298
C 471.2
(-2.3)
P 		594.2
(-0.2)
P 		518
(-1.5)
P 		427.4
(-3)
P 		477.7
(-2.2)
P 		785.7
(3)
P 		358
avr 533.2
(-1.7) 		553.5
(-1.3) 		465.3
(-3) 		473.2
(-2.8) 		473.5
(-2.8) 		780.6
(3) 		315
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 155
1 2 3 4 range
A 204.6
(3)
P 		111.1
(-0.8)
P 		151.8
(0.9)
P 		55.8
(-3)
P 		149
B 211
(3)
P 		127
(-0.3)
P 		137.1
(0.1)
P 		58.9
(-3)
P 		152
C 197
(3)
P 		144
(0.7)
P 		189
(2.6)
P 		61
(-3)
P 		136
avr 204.2
(3) 		127.4
(-0.2) 		159.3
(1.1) 		58.6
(-3) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 186
1 2 3 4 5 6 range
A 115.9
(-1.9)
P 		187.1
(2.2)
P 		97.2
(-3)
P 		140.9
(-0.5)
P 		136.8
(-0.7)
P 		201.1
(3)
P 		104
B 173.9
(-0.5)
P 		179.8
(-0.3)
P 		104.8
(-3)
P 		115.7
(-2.6)
P 		198.8
(0.4)
P 		272.2
(3)
P 		167
C 174.7
(0)
P 		181.3
(0.2)
P 		131.8
(-1.4)
P 		85.9
(-3)
P 		154.6
(-0.7)
P 		263
(3)
P 		177
avr 154.8
(-1.1) 		182.7
(0.2) 		111.3
(-3) 		114.2
(-2.9) 		163.4
(-0.7) 		245.4
(3) 		134
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193461_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3739
Sequence Type Exemplar sequence
Representative Public ID F54C9.6 NCBI
Target Description F54C9.6 /REP_DB=WormBase Gene ID /WP=CE02256 /TR=Q20755 /GB=CAA90252.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=ATP-binding protein (CDC48-PAS1-SEC18 family)
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_001027020(11), NM_001027021(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027020 NCBI Caenorhabditis elegans F54C9.6a (F54C9.6) mRNA, complete cds. 11/11 None
NM_001027021 NCBI Caenorhabditis elegans F54C9.6b (F54C9.6) mRNA, complete cds. 11/11 None
SNAP00000013422 ENSEMBL cdna:SNAP chromosome:CEL140:II:8569855:8572741:1 11/11 None
GENEFINDER00000013455 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8571018:8572741:1 11/11 None
F54C9.6.2 ENSEMBL cdna:known chromosome:CEL140:II:8571007:8572767:1 gene:F54C9.6 11/11 None
F54C9.6.1 ENSEMBL cdna:known chromosome:CEL140:II:8571018:8572800:1 gene:F54C9.6 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
chrII:8571014-8572738(+) 100.0 100.0
Public Domain and Genome References
Ensembl F54C9.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90252 Hypothetical protein F54C9.6a [Caenorhabditis elegans] ref|NP_001022191.1| F54C9.6a [Caenorhabditis elegans] 0.0
blast CAI70401 Hypothetical protein F54C9.6b [Caenorhabditis elegans] ref|NP_001022192.1| F54C9.6b [Caenorhabditis elegans] 0.0
blast CAE57581 Hypothetical protein CBG00560 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005484 EMBL-EBI Ribosomal protein L18P/L5E 2.8E-79
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 1.1E-31
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 1.1E-31
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 1.1E-31
Sequence
Target Sequence 
>C. ELEGANS:193461_AT
aagtagttttatttccgcattagcgagtcattttggatacagtgtgtgtttattgtctct
aagtgaaaggacacttgatgatgacagactgaaccatctattgaatacagcaccaccaaa
tagtgttgtgatcctggaggacattgacgcagcattcgtcagtcgagaagatcccatgtc
caatcatcctgcatatcaaggtctatccagagtcactttttctggtcttctaaacgcatt
agatggtgtcgcttgtgctgaagagcgactcacatttatgacaacaaactatgtagaacg
actagatcctgcattgattcgtcctggacgcgtagataggaaacaatatttcggaaatgc
tacggatggaatgttgagcaagatgttttcacgattctaccgacaaccttccgattctgt
ccttgctgatgaattcgtgaagagagtatccgaacacaaaactgaactgtcgccagcaat
gattcaaggacattttctgatgtacaagcaggatcctcgagcggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTAGTTTTATTTCCGCATTAGCG 505 37 780 Antisense
GTCAGTCGAGAAGATCCCATGTCCA 283 467 937 Antisense
CATGTCCAATCATCCTGCATATCAA 12 211 954 Antisense
AGGTCTATCCAGAGTCACTTTTTCT 565 57 978 Antisense
CACTTTTTCTGGTCTTCTAAACGCA 141 197 993 Antisense
CATTAGATGGTGTCGCTTGTGCTGA 58 215 1016 Antisense
GATCCTGCATTGATTCGTCCTGGAC 79 417 1084 Antisense
GTTTTCACGATTCTACCGACAACCT 650 447 1164 Antisense
TTCCGATTCTGTCCTTGCTGATGAA 240 699 1188 Antisense
AACTGTCGCCAGCAATGATTCAAGG 110 143 1244 Antisense
TGTACAAGCAGGATCCTCGAGCGGC 243 559 1280 Antisense
Sequence Source Affymetrix Proprietary Database