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[193489_s_at] ATP binding protein (CDC48/PAS1/SEC18 family)

Description F54B3.1 /REP_DB=WormBase Gene ID /WP=CE17865 /TR=O62263 /GB=CAA88472.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=ATP binding protein (CDC48-PAS1-SEC18 family)
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 35      4grp_highest_8_8 > 52      4grp_high_8_8 > 24      6grp_highest_nonorm > 50      6grp_total > 36      4grp_total > 39      6grp_highest_sub > Cu      6grp_high1_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 372
1 2 3 4 range
A 630.2
(3)
P 		273.4
(-3)
P 		297.7
(-2.6)
P 		418.1
(-0.6)
P 		357
B 645.1
(3)
P 		317.8
(-3)
P 		323.7
(-2.9)
P 		340.8
(-2.6)
P 		327
C 581.1
(3)
P 		307.6
(-3)
P 		337.9
(-2.3)
P 		414
(-0.7)
P 		274
avr 618.8
(3) 		299.6
(-3) 		319.8
(-2.6) 		391
(-1.3) 		319

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 403
1 2 3 4 5 6 range
A 521.8
(1.6)
P 		592.6
(3)
P 		466.2
(0.4)
P 		465.8
(0.4)
P 		298.8
(-3)
P 		507
(1.3)
P 		294
B 654.1
(3)
P 		616.5
(2.3)
P 		457.7
(-0.5)
P 		413.1
(-1.3)
P 		318.8
(-3)
P 		505.6
(0.3)
P 		335
C 622.6
(2.3)
P 		666.9
(3)
P 		438.6
(-0.4)
P 		442.7
(-0.3)
P 		263.6
(-3)
P 		532.7
(1)
P 		403
avr 599.5
(2.5) 		625.3
(3) 		454.2
(-0.1) 		440.5
(-0.3) 		293.7
(-3) 		515.1
(1) 		332
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 170
1 2 3 4 range
A 229.5
(3)
P 		59.3
(-3)
P 		77.8
(-2.3)
P 		61.2
(-2.9)
P 		170
B 205.7
(3)
P 		78.5
(-2.7)
P 		75
(-2.9)
P 		72.6
(-3)
P 		133
C 192.4
(3)
P 		88.4
(-2.1)
P 		117.8
(-0.7)
P 		69.8
(-3)
P 		123
avr 209.2
(3) 		75.4
(-2.7) 		90.2
(-2.1) 		67.9
(-3) 		141

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 146
1 2 3 4 5 6 range
A 96.2
(-2.7)
P 		210.7
(3)
P 		101.5
(-2.4)
P 		118.1
(-1.6)
P 		90.2
(-3)
P 		123.4
(-1.3)
P 		121
B 227.6
(3)
P 		205.2
(1.9)
P 		111.2
(-2.9)
P 		109.4
(-3)
P 		129.5
(-2)
P 		188.5
(1)
P 		118
C 230.8
(3)
P 		203.5
(1.9)
P 		111.6
(-1.9)
P 		89
(-2.8)
P 		85.3
(-3)
P 		178.3
(0.8)
P 		146
avr 184.9
(1.8) 		206.5
(3) 		108.1
(-2.6) 		105.5
(-2.8) 		101.7
(-3) 		163.4
(0.5) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193489_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3212
Sequence Type Exemplar sequence
Representative Public ID F54B3.1 NCBI
Target Description F54B3.1 /REP_DB=WormBase Gene ID /WP=CE17865 /TR=O62263 /GB=CAA88472.1 /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_063810(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063810 NCBI Caenorhabditis elegans F54B3.1 (F54B3.1) mRNA, complete cds. 11/11 None
SNAP00000006966 ENSEMBL cdna:SNAP chromosome:CEL140:II:10251204:10267795:1 11/11 None
GENEFINDER00000006974 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10251204:10267795:1 11/11 None
F54B3.1 ENSEMBL cdna:known chromosome:CEL140:II:10251563:10268078:1 gene:F54B3.1 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:10251559-10267792(+) 99.76 100.0
Public Domain and Genome References
Gene Title ATP binding protein (CDC48/PAS1/SEC18 family)
Ensembl F54B3.1
Entrez Gene 174591 Entrez gene
SwissProt O62263 EMBL-EBI
WormBase CE17865 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.8791.1.S1_AT similar to RP11-506B15.1 protein isoform 1 cfa
CANINE_2:CFAAFFX.8794.1.S1_AT similar to RP11-506B15.1 protein isoform 1 cfa
HU35KSUBB:RC_H91630_AT chromosome 1 open reading frame 84 hs
U133_X3P:HS2.397063.1.S1_3P_AT chromosome 1 open reading frame 84 hs
HG-U133_PLUS_2:1569709_AT chromosome 1 open reading frame 84 hs
Protein Similarities
Method ID Description E-Value
blast CAA88472 Hypothetical protein F54B3.1 [Caenorhabditis elegans] ref|NP_496211.1| F54B3.1 [Caenorhabditis elegans] 0.0
blast NP_001012978 RP11-506B15.1 protein isoform 1 [Homo sapiens] 3.0E-60
blast XP_853417 PREDICTED: similar to RP11-506B15.1 protein isoform 1 [Canis familiaris] 1.0E-58
blast NP_001012978 RP11-506B15.1 protein isoform 1 [Homo sapiens] 1.0E-56
blast XP_853417 PREDICTED: similar to RP11-506B15.1 protein isoform 1 [Canis familiaris] 4.0E-55
blast XP_781070 PREDICTED: similar to RP11-506B15.1 protein isoform 1, partial [Strongylocentrotus purpuratus] 1.0E-50
Sequence
Target Sequence 
>C. ELEGANS:193489_S_AT
ttggagcctcaatgaacgtttttcatctgattgaacgactcttggattattatcaatacg
atcttattttgtcaaagaatcttgtagcgattaaatatctgtacttgacacgtgagcaca
acgatataatattgacgagaatggaggaagaagaggatttaatgcttatgaaaatggaga
atgatccagtgattgatcagagatatgctggaaatccgattgaagacgctatttttaaaa
tcacagaaggccatctctataaatcgaagcatcctgtaacgacgatcgaaatgacaggaa
ttctgagtccccaaatgagtagcccatcttccgtaaaacaatgctcacgagttgtgccat
caatcaaaatacgggttcacatggacgacgttggcggcggcggcatcggatgtgatgacg
atcgactctactggccgccgactcaagatcgcgaatttatcgaggatttcgagggaaaac
aacgacgtcgtctgctggagaacatgtcgaaatacgggaccgaacacgttccaacaccat
gggaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGAGCCTCAATGAACGTTTTTCA 503 707 9599 Antisense
ATATCTGTACTTGACACGTGAGCAC 75 21 9693 Antisense
TCTGAGTCCCCAAATGAGTAGCCCA 328 607 9900 Antisense
AGTAGCCCATCTTCCGTAAAACAAT 124 63 9916 Antisense
AATGCTCACGAGTTGTGCCATCAAT 522 165 9938 Antisense
ATACGGGTTCACATGGACGACGTTG 323 21 9967 Antisense
CGGCGGCGGCATCGGATGTGATGAC 380 241 9993 Antisense
TGTGATGACGATCGACTCTACTGGC 487 555 10009 Antisense
GCCGCCGACTCAAGATCGCGAATTT 598 285 10032 Antisense
CAACGACGTCGTCTGCTGGAGAACA 474 187 10078 Antisense
GAACACGTTCCAACACCATGGGAAG 64 353 10120 Antisense
Sequence Source Affymetrix Proprietary Database