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[194011_at] ATPases associated with various cellular activities (AAA)

Description Y49E10.1 /REP_DB=WormBase Gene ID /WP=CE22219 /GEN=rpt-6 /TR=Q9XTT9 /GB=CAB11558.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATPases associated with various cellular activities (AAA)
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 74      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 86      6grp_total > 74      4grp_total > 48      6grp_cgc > 66      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 786
1 2 3 4 range
A 965.3
(-3)
P 		1494.2
(1.6)
P 		1658.1
(3)
P 		1095.4
(-1.9)
P 		693
B 1090.8
(-3)
P 		1544.5
(1.1)
P 		1751.1
(3)
P 		1165.2
(-2.3)
P 		660
C 1018.7
(-3)
P 		1494.7
(2.4)
P 		1543.4
(3)
P 		1167
(-1.3)
P 		525
avr 1024.9
(-3) 		1511.1
(1.7) 		1650.9
(3) 		1142.5
(-1.9) 		626

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 753.2
(-3)
P 		953.4
(0.5)
P 		1032.3
(1.9)
P 		892
(-0.6)
P 		915.8
(-0.1)
P 		1094.4
(3)
P 		341
B 887.3
(-3)
P 		899.4
(-2.7)
P 		1156.9
(3)
P 		1068.7
(1)
P 		1116.7
(2.1)
P 		1017.4
(-0.1)
P 		270
C 814.6
(-3)
P 		815.5
(-3)
P 		1099.7
(3)
P 		991.9
(0.7)
P 		1070.6
(2.4)
P 		1021.5
(1.4)
P 		285
avr 818.4
(-3) 		889.4
(-1.5) 		1096.3
(3) 		984.2
(0.6) 		1034.4
(1.7) 		1044.4
(1.9) 		278
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 378
1 2 3 4 range
A 351.5
(1.2)
P 		324.3
(0.6)
P 		433.5
(3)
P 		160.3
(-3)
P 		273
B 347.8
(0.8)
P 		381.5
(2.1)
P 		405.8
(3)
P 		248.3
(-3)
P 		158
C 337.2
(-0.5)
P 		429.7
(1.1)
P 		537.9
(3)
P 		196.8
(-3)
P 		341
avr 345.5
(0.4) 		378.5
(1.1) 		459.1
(3) 		201.8
(-3) 		257

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 315
1 2 3 4 5 6 range
A 138.8
(-3)
P 		339.1
(3)
P 		224.8
(-0.4)
P 		226.2
(-0.4)
P 		276.4
(1.1)
P 		266.5
(0.8)
P 		200
B 308.7
(-2)
P 		299.4
(-2.4)
P 		280.9
(-3)
P 		283.1
(-2.9)
P 		453.7
(3)
P 		379.4
(0.4)
P 		173
C 301.9
(1.2)
P 		248.8
(-1)
P 		279.9
(0.3)
P 		199.5
(-3)
P 		346.4
(3)
P 		342
(2.8)
P 		147
avr 249.8
(-2.3) 		295.8
(-0.1) 		261.9
(-1.7) 		236.3
(-3) 		358.8
(3) 		329.3
(1.6) 		123
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194011_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6299
Sequence Type Exemplar sequence
Representative Public ID Y49E10.1 NCBI
Target Description Y49E10.1 /REP_DB=WormBase Gene ID /WP=CE22219 /GEN=rpt-6 /TR=Q9XTT9 /GB=CAB11558.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATPases associated with various cellular activities (AAA)
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_067208(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067208 NCBI Caenorhabditis elegans proteasome Regulatory Particle, ATPase-like family member (rpt-6) (rpt-6) mRNA, complete cds. 11/11 None
SNAP00000016069 ENSEMBL cdna:SNAP chromosome:CEL140:III:12370336:12379299:1 11/11 None
GENEFINDER00000016123 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12370336:12372332:1 11/11 None
Y49E10.1 ENSEMBL cdna:known chromosome:CEL140:III:12370331:12372492:1 gene:Y49E10.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Y37H9A.4 2/11 Cross Hyb Matching Probes None
C08F11.6 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:12370331-12372328(+) 100.0 100.0
Public Domain and Genome References
Gene Title ATPases associated with various cellular activities (AAA)
Gene Symbol rpt-6
Ensembl Y49E10.1
Entrez Gene 176661 Entrez gene
SwissProt Q9XTT9 EMBL-EBI
WormBase CE22219 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246147_S_AT 26S proteasome AAA-ATPase subunit (RPT6a) at
CANINE:1604889_S_AT similar to for proteasomal ATPase (SUG1) cfa
CANINE_2:CFA.2904.1.S1_S_AT similar to for proteasomal ATPase (SUG1) cfa
DROSOPHILA_2:1639784_AT Saccharomyces cerevisiae UAS construct a of Cheng dm
DROSGENOME1:154351_AT Saccharomyces cerevisiae UAS construct a of Cheng dm
CHICKEN:GGA.4871.1.S1_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 gga
HG-U133A:209503_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
HG-U133_PLUS_2:209503_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
HG-FOCUS:209503_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
HG-U133A_2:209503_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
HUGENEFL:L38810_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
U133_X3P:G2661070_3P_A_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
HG-U95AV2:37766_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 5 hs
MU11KSUBB:MSA.13981.0_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MU11KSUBB:Z54219_S_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MG-U74AV2:161921_F_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MG-U74AV2:160534_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MG-U74CV2:171139_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MOE430A:1415740_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MOE430B:1415740_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MOUSE430A_2:1415740_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MOUSE430_2:1415740_AT protease (prosome, macropain) 26S subunit, ATPase 5 mm
MU19KSUBA:TC23167_AT Protease (prosome, macropain) 26S subunit, ATPase 5, mRNA (cDNA clone MGC:31044 IMAGE:3994523) mm
MU19KSUBA:TC23167_G_AT Protease (prosome, macropain) 26S subunit, ATPase 5, mRNA (cDNA clone MGC:31044 IMAGE:3994523) mm
RG-U34A:AB000491_AT peptidase (prosome, macropain) 26S subunit, ATPase 5 rn
RAE230A:1367833_AT peptidase (prosome, macropain) 26S subunit, ATPase 5 rn
RAT230_2:1367833_AT peptidase (prosome, macropain) 26S subunit, ATPase 5 rn
YEAST_2:1770099_AT One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; bound by ubiquitin-protein ligases Ubr1p and Ufd4p; localized mainly to the nucleus throughout the cell cycle 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 CAB11558 Hypothetical protein Y49E10.1 [Caenorhabditis elegans] ref|NP_499609.1| proteasome Regulatory Particle, ATPase-like family member (rpt-6) [Caenorhabditis elegans] 0.0
blast CAE66491 Hypothetical protein CBG11771 [Caenorhabditis briggsae] 0.0
blast AAK21407 Hypothetical protein F56F11.4a [Caenorhabditis elegans] ref|NP_741099.1| F56F11.4a [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 5.5E-89
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 5.9E-83
Sequence
Target Sequence 
>C. ELEGANS:194011_AT
gtgcacgtttattcgagtttccggctccgagttggtgcagaagtttattggagaaggagc
acgaatggttcgtgagctcttcgtgatggctcgtgagcatgctccatcgatcattttcat
ggatgaaatcgattcgatcggatctagcagagttgaaggatccagtggtggagattcgga
agttcagagaacaatgctcgagcttctcaatcaactggatggatttgaggcgacgaagaa
tattaaggtcatcatggcaaccaatcgtatcgacattctcgaccccgcacttctccgtcc
cggccgtatcgatcgtaagattgagttcccggctccagatgagaaggctcgtgccgatat
cctcaagattcactcgcgcaagatgaacttgatgcgaggtatcaacatggccaagatcgc
cgagcaaattcccggagcatcgggagccgaagtcaagtcggtgtgtaccgaggctggcat
gttcgcgctccgtgagcgacgtattcatgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGCACGTTTATTCGAGTTTCCGGC 292 479 666 Antisense
TTTCCGGCTCCGAGTTGGTGCAGAA 34 669 683 Antisense
CGTGAGCTCTTCGTGATGGCTCGTG 417 245 736 Antisense
AGCATGCTCCATCGATCATTTTCAT 173 79 761 Antisense
AATGCTCGAGCTTCTCAATCAACTG 398 165 858 Antisense
GGCAACCAATCGTATCGACATTCTC 93 535 921 Antisense
TGAGAAGGCTCGTGCCGATATCCTC 124 569 1005 Antisense
CGATATCCTCAAGATTCACTCGCGC 168 249 1020 Antisense
AGATCGCCGAGCAAATTCCCGGAGC 159 67 1079 Antisense
TGTGTACCGAGGCTGGCATGTTCGC 235 555 1127 Antisense
GCTCCGTGAGCGACGTATTCATGTG 57 299 1152 Antisense
Sequence Source Affymetrix Proprietary Database