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[192330_at]

Description F56F11.4 /REP_DB=WormBase Gene ID /WP=CE28467 /TR=Q9TZ65 /GB=AAK21407.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=26S protease regulatory subunit
Cluster 6grp_total > 87      4grp_total > 24      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 99
1 2 3 4 range
A 104.1
(-3)
A 		148.5
(1.1)
A 		113.3
(-2.1)
A 		169
(3)
A 		65
B 70
(-3)
A 		81.3
(-2.1)
A 		142.7
(3)
A 		128.2
(1.8)
A 		73
C 77.2
(-2.4)
A 		74.5
(-3)
A 		102.7
(3)
A 		101
(2.6)
A 		28
avr 83.8
(-3) 		101.4
(-0.8) 		119.6
(1.4) 		132.7
(3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 365
1 2 3 4 5 6 range
A 31
(-3)
A 		82.7
(-2)
A 		90.6
(-1.8)
A 		94.2
(-1.7)
A 		237.3
(1.1)
P 		332.1
(3)
P 		301
B 70.3
(-3)
A 		100.1
(-2.5)
A 		106.9
(-2.3)
A 		130.1
(-1.9)
M 		252.5
(0.4)
P 		395.7
(3)
P 		325
C 92.1
(-2.9)
A 		84.7
(-3)
A 		129.1
(-2.1)
A 		112.7
(-2.5)
A 		202.2
(-0.7)
P 		391.1
(3)
P 		306
avr 64.5
(-3) 		89.2
(-2.5) 		108.9
(-2.1) 		112.3
(-2.1) 		230.7
(0.2) 		373
(3) 		309
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 37.9
(3)
A 		32.2
(0.4)
A 		29.6
(-0.8)
A 		24.7
(-3)
A 		13
B 22.3
(-2)
A 		20.1
(-3)
A 		33.1
(3)
A 		27.3
(0.3)
A 		13
C 25.5
(-0.3)
A 		21.4
(-1.6)
A 		35.8
(3)
A 		17
(-3)
A 		19
avr 28.6
(0.4) 		24.6
(-2) 		32.8
(3) 		23
(-3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 5.7
(-3)
A 		29.4
(-1.1)
A 		19.7
(-1.9)
A 		23.9
(-1.5)
A 		71.6
(2.3)
P 		80.8
(3)
P 		75
B 24.5
(-3)
A 		33.3
(-2.6)
A 		25.9
(-2.9)
A 		34.5
(-2.5)
M 		102.6
(0.8)
P 		147.6
(3)
P 		123
C 34.2
(-2.4)
A 		25.8
(-2.8)
A 		32.9
(-2.4)
A 		22.7
(-3)
A 		65.4
(-0.6)
P 		130.9
(3)
P 		108
avr 21.5
(-3) 		29.5
(-2.5) 		26.2
(-2.7) 		27
(-2.7) 		79.9
(0.6) 		119.8
(3) 		98
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192330_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7950
Sequence Type Exemplar sequence
Representative Public ID F56F11.4 NCBI
Target Description F56F11.4 /REP_DB=WormBase Gene ID /WP=CE28467 /TR=Q9TZ65 /GB=AAK21407.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=26S protease regulatory subunit
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_171085(11), NM_171086(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171085 NCBI Caenorhabditis elegans F56F11.4b (F56F11.4) mRNA, complete cds. 11/11 None
NM_171086 NCBI Caenorhabditis elegans F56F11.4a (F56F11.4) mRNA, complete cds. 11/11 None
SNAP00000006302 ENSEMBL cdna:SNAP chromosome:CEL140:III:2858700:2866232:1 11/11 None
GENEFINDER00000006315 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2858700:2865766:1 11/11 None
F56F11.4b ENSEMBL cdna:known chromosome:CEL140:III:2855544:2865376:1 gene:F56F11.4 11/11 None
F56F11.4a ENSEMBL cdna:known chromosome:CEL140:III:2858699:2865376:1 gene:F56F11.4 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
chrIII:2858699-2865376(+) 95.95 100.0
Public Domain and Genome References
Ensembl F56F11.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM48537 Hypothetical protein F56F11.4b [Caenorhabditis elegans] ref|NP_741098.1| F56F11.4b [Caenorhabditis elegans] 0.0
blast AAK21407 Hypothetical protein F56F11.4a [Caenorhabditis elegans] ref|NP_741099.1| F56F11.4a [Caenorhabditis elegans] 0.0
blast T33633 hypothetical protein F56F11.4 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 3.5E-89
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 1.4E-48
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 4.8E-33
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 3.5E-89
Sequence
Target Sequence 
>C. ELEGANS:192330_AT
tcgagcggtggctcatcacactgaatgcacatttattcgtgtatctggatctgaattagt
tcagaaattcattggagaaggcgccagaatggttcgtgaactatttgtaatggctcgtga
acatgctccatcaatcatttttatggatgaaattgattcaattggttcaagtcgtgttga
aggatcacgtggtggagattcagaagttcagagaacaatgcttgaattgcttaatcaatt
ggatggatttgaggccactaaaaatattaaggtaatcatggcaaccaatcgtattgatat
tctcgactcggctcttctccgcccgggacgtattgatcgaaaaatcgaatttccggctcc
agacgagaaagctcgagctcagattctgaagattcactctcgaaaaatgaatttgatgcg
tggaatccgaatggacaagattgccgaacaaatccccggagcatcgggtgctgaagtgaa
atctgtgtgcactgaggctggaatgtttgctcttcgtgaaagacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGAGCGGTGGCTCATCACACTGAA 306 601 723 Antisense
CATTTATTCGTGTATCTGGATCTGA 225 215 752 Antisense
GAAGGCGCCAGAATGGTTCGTGAAC 409 333 799 Antisense
ATGGCTCGTGAACATGCTCCATCAA 667 51 832 Antisense
GTATTGATATTCTCGACTCGGCTCT 153 453 1013 Antisense
TCCGCCCGGGACGTATTGATCGAAA 292 597 1040 Antisense
CGAATTTCCGGCTCCAGACGAGAAA 597 253 1068 Antisense
ATTGCCGAACAAATCCCCGGAGCAT 89 3 1162 Antisense
GCATCGGGTGCTGAAGTGAAATCTG 272 309 1183 Antisense
ATCTGTGTGCACTGAGGCTGGAATG 582 33 1203 Antisense
GAATGTTTGCTCTTCGTGAAAGACG 447 331 1223 Antisense
Sequence Source Affymetrix Proprietary Database