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[188424_s_at]

Description F23F1.8 /REP_DB=WormBase Gene ID /WP=CE09608 /GEN=rpt-4 /TR=SW:O17071 /GB=AAB70326.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 64      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 36      6grp_total > 63      4grp_total > 57      6grp_cgc > 92      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3465
1 2 3 4 range
A 3173
(-1.5)
P 		5132.8
(3)
P 		4634
(1.9)
P 		2521.7
(-3)
P 		2611
B 3360
(-2.2)
P 		4917.3
(0.9)
P 		5987.1
(3)
P 		2964.1
(-3)
P 		3023
C 3461
(-1.3)
P 		4687.8
(2.9)
P 		4717.6
(3)
P 		2953.4
(-3)
P 		1764
avr 3331.3
(-1.6) 		4912.6
(2.5) 		5112.9
(3) 		2813.1
(-3) 		2300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2831
1 2 3 4 5 6 range
A 3944.7
(1.5)
P 		3253.7
(-2)
P 		4234.6
(3)
P 		3783.3
(0.7)
P 		3067.7
(-3)
P 		3373
(-1.4)
P 		1167
B 3026.7
(-2)
P 		3259.9
(-1.5)
P 		5375.2
(3)
P 		4239.3
(0.6)
P 		2544.6
(-3)
P 		3640.5
(-0.7)
P 		2831
C 2691.4
(-2.5)
P 		3488.1
(0.7)
P 		3952.6
(2.5)
P 		4085.2
(3)
P 		2551.4
(-3)
P 		3993.7
(2.6)
P 		1534
avr 3220.9
(-1.3) 		3333.9
(-1) 		4520.8
(3) 		4035.9
(1.4) 		2721.2
(-3) 		3669.1
(0.2) 		1800
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1275
1 2 3 4 range
A 1155.3
(2.6)
P 		1114.2
(2.3)
P 		1211.4
(3)
P 		369.1
(-3)
P 		842
B 1071.5
(0.5)
P 		1214.5
(1.6)
P 		1387.4
(3)
P 		631.7
(-3)
P 		756
C 1145.7
(0.4)
P 		1347.8
(1.4)
P 		1644.2
(3)
P 		498
(-3)
P 		1146
avr 1124.2
(1.1) 		1225.5
(1.8) 		1414.3
(3) 		499.6
(-3) 		915

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 630
1 2 3 4 5 6 range
A 727.2
(-3)
P 		1157.2
(3)
P 		922.2
(-0.3)
P 		959.5
(0.2)
P 		925.7
(-0.2)
P 		821.2
(-1.7)
P 		430
B 1053.1
(-2.6)
P 		1085.1
(-2)
P 		1305.2
(2)
P 		1122.8
(-1.4)
P 		1033.8
(-3)
P 		1357.5
(3)
P 		324
C 997.6
(-0.9)
P 		1064.3
(-0.2)
P 		1006
(-0.9)
P 		821.5
(-3)
P 		825.6
(-3)
P 		1336.9
(3)
P 		515
avr 926
(-3) 		1102.2
(1.3) 		1077.8
(0.7) 		967.9
(-2) 		928.4
(-2.9) 		1171.9
(3) 		246
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188424_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5724
Sequence Type Exemplar sequence
Representative Public ID F23F1.8 NCBI
Target Description F23F1.8 /REP_DB=WormBase Gene ID /WP=CE09608 /GEN=rpt-4 /TR=SW:O17071 /GB=AAB70326.1 /SUBMIT=ST.LOUIS /CHR=2 /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_001026942(11), NM_001026943(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026942 NCBI Caenorhabditis elegans proteasome Regulatory Particle, ATPase-like family member (rpt-4) (rpt-4) mRNA, complete cds. 11/11 None
NM_001026943 NCBI Caenorhabditis elegans proteasome Regulatory Particle, ATPase-like family member (rpt-4) (rpt-4) mRNA, complete cds. 11/11 None
SNAP00000004427 ENSEMBL cdna:SNAP chromosome:CEL140:II:42363:43659:-1 11/11 None
GENEFINDER00000004431 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:42363:43659:-1 11/11 None
F23F1.8a ENSEMBL cdna:known chromosome:CEL140:II:42207:46216:-1 gene:F23F1.8 11/11 None
F23F1.8b.1 ENSEMBL cdna:known chromosome:CEL140:II:42363:43664:-1 gene:F23F1.8 11/11 None
F23F1.8b.2 ENSEMBL cdna:known chromosome:CEL140:II:42363:43662:-1 gene:F23F1.8 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:42362-43659(-) 100.0 100.0
Public Domain and Genome References
Ensembl F23F1.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70326 Proteasome regulatory particle, atpase-like protein 4, isoform a [Caenorhabditis elegans] ref|NP_001022113.1| proteasome Regulatory Particle, ATPase-like family member (rpt-4) [Caenorhabditis elegans] sp|O17071|PRS10_CAEEL Probable 26S protease regulatory subunit S10B 0.0
blast AAV58871 Proteasome regulatory particle, atpase-like protein 4, isoform b [Caenorhabditis elegans] ref|NP_001022114.1| proteasome Regulatory Particle, ATPase-like family member (rpt-4) [Caenorhabditis elegans] pir||T32268 hypothetical protein F23F1.8 - Caenorhabditis elegans 0.0
blast CAE62825 Hypothetical protein CBG07004 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 2.0E-94
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 2.0E-94
Sequence
Target Sequence 
>C. ELEGANS:188424_S_AT
ccttgctcgtgctgtagcatcgcaactggattgcaatttcctgaaagttgtctcgtctgc
tattgttgataaatatatcggagagtctgcaagaatgattcgagaaatgttcaattatgc
tcgtgaccatcagccatgcattgtcttcatggatgaaattgatgcgatcggtggaagacg
tttctcagaaggaacatcagcagatcgtgaaattcagagaactcttatggaacttctcaa
tcagctcgatggattcgattcgcttggaaaagtcaaggttattatggccacgaatcgtcc
tgatacattggatcctgctcttcttcgtcctggaagacttgatagaaagattgaaatcgg
actgccaaacgaacaatctcgcttggaaattctcaagattcactcgaacaagatcaccaa
acacggcgaaatagattttgaagctgttgtcaagttgtccgacggattctcggctgctga
tttaagaaatgtgtgcacagaagctggaatgtttgccatccgtgctgagcgtgaattcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTTGCTCGTGCTGTAGCATCGCAA 150 271 585 Antisense
GAAAGTTGTCTCGTCTGCTATTGTT 295 361 627 Antisense
GACCATCAGCCATGCATTGTCTTCA 466 383 709 Antisense
GCGATCGGTGGAAGACGTTTCTCAG 514 289 748 Antisense
ATGGAACTTCTCAATCAGCTCGATG 315 53 811 Antisense
GGCCACGAATCGTCCTGATACATTG 139 545 870 Antisense
GAACAATCTCGCTTGGAAATTCTCA 346 353 955 Antisense
GAAGCTGTTGTCAAGTTGTCCGACG 334 343 1024 Antisense
ACGGATTCTCGGCTGCTGATTTAAG 633 95 1046 Antisense
AGCTGGAATGTTTGCCATCCGTGCT 530 81 1086 Antisense
GCCATCCGTGCTGAGCGTGAATTCG 205 281 1099 Antisense
Sequence Source Affymetrix Proprietary Database