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[188631_at]

Description F23F12.6 /REP_DB=WormBase Gene ID /WP=CE01253 /GEN=rpt-3 /TR=SW:P46502 /GB=AAA20608.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 72      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 47      6grp_total > 73      4grp_total > 48      6grp_highest_sub > 04      6grp_cgc > 76      6grp_high1_sub > 04      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2583
1 2 3 4 range
A 3263.3
(-3)
P 		5471
(2.7)
P 		5595.2
(3)
P 		3701.8
(-1.9)
P 		2332
B 3012.5
(-3)
P 		4782.9
(1.2)
P 		5524.2
(3)
P 		3677
(-1.4)
P 		2512
C 3113.3
(-3)
P 		4458.3
(0.8)
P 		5241
(3)
P 		3451.3
(-2)
P 		2128
avr 3129.7
(-3) 		4904.1
(1.6) 		5453.5
(3) 		3610
(-1.8) 		2324

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1281
1 2 3 4 5 6 range
A 3386.4
(-1.1)
P 		3028.4
(-3)
P 		3626.4
(0.3)
P 		3619
(0.2)
P 		4131.1
(3)
P 		3609.5
(0.2)
P 		1103
B 3367
(-3)
P 		3373.2
(-3)
P 		4309.5
(3)
P 		4108
(1.7)
P 		3409.8
(-2.7)
P 		3416.1
(-2.7)
P 		943
C 3122.3
(-2.7)
P 		3052.9
(-3)
P 		3972.1
(1.6)
P 		4247.4
(3)
P 		3804.9
(0.8)
P 		3439.6
(-1.1)
P 		1195
avr 3291.9
(-2) 		3151.5
(-3) 		3969.3
(2.8) 		3991.5
(3) 		3781.9
(1.5) 		3488.4
(-0.6) 		840
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1285
1 2 3 4 range
A 1188.2
(1.2)
P 		1187.6
(1.2)
P 		1462.7
(3)
P 		541.9
(-3)
P 		921
B 960.7
(-0.9)
P 		1181.3
(1.8)
P 		1280.1
(3)
P 		783.6
(-3)
P 		497
C 1030.6
(-0.8)
P 		1281.8
(0.4)
P 		1826.7
(3)
P 		581.9
(-3)
P 		1245
avr 1059.8
(-0.1) 		1216.9
(0.9) 		1523.2
(3) 		635.8
(-3) 		887

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 761
1 2 3 4 5 6 range
A 624.3
(-3)
P 		1077.1
(1.4)
P 		789.8
(-1.4)
P 		917.9
(-0.2)
P 		1246.6
(3)
P 		878.8
(-0.5)
P 		622
B 1171.6
(-0.8)
P 		1122.8
(-1.6)
P 		1046.5
(-3)
P 		1088.1
(-2.3)
P 		1385.4
(3)
P 		1273.8
(1)
P 		339
C 1157.3
(1.8)
P 		931.5
(-1.8)
P 		1011
(-0.5)
P 		854.2
(-3)
P 		1231.2
(3)
P 		1151.4
(1.7)
P 		377
avr 984.4
(-2.4) 		1043.8
(-1.3) 		949.1
(-3) 		953.4
(-2.9) 		1287.7
(3) 		1101.3
(-0.3) 		339
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188631_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6567
Sequence Type Exemplar sequence
Representative Public ID F23F12.6 NCBI
Target Description F23F12.6 /REP_DB=WormBase Gene ID /WP=CE01253 /GEN=rpt-3 /TR=SW:P46502 /GB=AAA20608.1 /SUBMIT=ST.LOUIS /CHR=3 /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_066028(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066028 NCBI Caenorhabditis elegans proteasome Regulatory Particle, ATPase-like family member (rpt-3) (rpt-3) mRNA, complete cds. 11/11 None
GENEFINDER00000039914 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6488569:6491113:1 11/11 None
SNAP00000039902 ENSEMBL cdna:SNAP chromosome:CEL140:III:6489734:6491113:1 11/11 None
F23F12.6.2 ENSEMBL cdna:known chromosome:CEL140:III:6489728:6491217:1 gene:F23F12.6 11/11 None
F23F12.6.1 ENSEMBL cdna:known chromosome:CEL140:III:6489730:6491217:1 gene:F23F12.6 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
chrIII:6489732-6491112(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rpt-3
Ensembl F23F12.6
Entrez Gene 175925 Entrez gene
SwissProt P46502 EMBL-EBI
WormBase CE01253 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247810_AT 26S proteasome AAA-ATPase subunit (RPT3) at
CANINE:1592147_S_AT similar to 26S protease regulatory subunit 6B (MIP224) (MB67 interacting protein) (TAT-binding protein-7) (TBP-7) cfa
CANINE:1591441_S_AT similar to 26S protease regulatory subunit 6B (MIP224) (MB67 interacting protein) (TAT-binding protein-7) (TBP-7) cfa
CANINE_2:CFA.14694.1.A1_AT similar to 26S protease regulatory subunit 6B (MIP224) (MB67 interacting protein) (TAT-binding protein-7) (TBP-7) cfa
CANINE_2:CFA.14694.1.A1_S_AT similar to 26S protease regulatory subunit 6B (MIP224) (MB67 interacting protein) (TAT-binding protein-7) (TBP-7) cfa
CANINE_2:CFA.17798.1.S1_S_AT similar to 26S protease regulatory subunit 6B (MIP224) (MB67 interacting protein) (TAT-binding protein-7) (TBP-7) cfa
DROSOPHILA_2:1637341_AT dm
DROSGENOME1:144245_AT dm
HG-U133_PLUS_2:201252_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HG-U133A:201252_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HG-FOCUS:201252_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HG-U133A_2:201252_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HU35KSUBA:RC_AA441978_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HU35KSUBA:D82226_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
U133_X3P:G5729990_3P_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HG-U95AV2:32848_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
HG-U95D:68405_AT Proteasome (prosome, macropain) 26S subunit, ATPase, 4 hs
MU11KSUBA:L76223_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MG-U74AV2:95672_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MG-U74CV2:169535_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOE430A:1416291_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOUSE430A_2:1416291_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOUSE430_2:1416291_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOE430A:1416290_A_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOUSE430A_2:1416290_A_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MOUSE430_2:1416290_A_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 mm
MU19KSUBB:TC30535_AT Proteasome (prosome, macropain) 26S subunit, ATPase, 4, mRNA (cDNA clone IMAGE:3501138) mm
RG-U34A:D50695_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAE230A:1398869_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAT230_2:1398869_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAE230B:1391768_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAT230_2:1391768_AT proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAE230B:1381794_AT Proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
RAT230_2:1381794_AT Proteasome (prosome, macropain) 26S subunit, ATPase, 4 rn
YEAST_2:1779196_AT One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; substrate of N-acetyltransferase B Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
30163 protein catabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_498429 proteasome Regulatory Particle, ATPase-like family member (rpt-3) [Caenorhabditis elegans] gb|AAA20608.1| Proteasome regulatory particle, atpase-like protein 3 [Caenorhabditis elegans] sp|P46502|PRS6B_CAEEL Probable 26S protease regulatory subunit 6B 0.0
blast CAE64409 Hypothetical protein CBG09101 [Caenorhabditis briggsae] 0.0
blast CAE61029 Hypothetical protein CBG04772 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 7.2E-88
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 7.2E-88
Sequence
Target Sequence 
>C. ELEGANS:188631_AT
ctgcaaatactgctgcttccttcattcgcgttgttggatctgagtttgtacagaaatatc
ttggagaaggaccacgaatggtgcgtgacgtcttccgtctggcaaaggaaaacagcccat
ctattatttttatcgatgaaattgacgcgattgctacgaaacgtttcgatgctcaaaccg
gagcagatcgtgaggttcaacgtattcttctcgaattgctcaatcaaatggacggttttg
atcaaagcactaatgtgaaagttatcatggccactaatcgacaggatactctcgatcctg
cacttcttcgtccaggtcgtctcgatcgtaagattgagttcccattgccagatcgtcgtc
aaaagcgtctcgtattctcaaccgtctgctctcgtatgaacctgtcggatgatgttgatt
tggaagactgggttgctcgtccagacaagatttcaggagctgatatcaactctatctgtc
aagaagctggtatgcaagccgttcgtgagaatcgttacgttgtgcttaccaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGCAAATACTGCTGCTTCCTTCAT 141 237 659 Antisense
CTTCCTTCATTCGCGTTGTTGGATC 374 219 674 Antisense
ACGAATGGTGCGTGACGTCTTCCGT 692 91 732 Antisense
GAGGTTCAACGTATTCTTCTCGAAT 648 401 850 Antisense
GTTATCATGGCCACTAATCGACAGG 492 445 919 Antisense
AAGATTGAGTTCCCATTGCCAGATC 573 155 988 Antisense
CAAAAGCGTCTCGTATTCTCAACCG 49 191 1018 Antisense
GCTCTCGTATGAACCTGTCGGATGA 15 301 1046 Antisense
GGAAGACTGGGTTGCTCGTCCAGAC 79 531 1080 Antisense
GAAGCTGGTATGCAAGCCGTTCGTG 388 343 1141 Antisense
GAATCGTTACGTTGTGCTTACCAAG 533 329 1167 Antisense
Sequence Source Affymetrix Proprietary Database