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[173894_s_at] 26S protease regulatory subunit 7

Description C44132 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C52E4.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C44132 /WB_GENE_ID=C52E4.4 /WP=CE08946 /CHR=5 /FEA=Genomic Cluster /GEN=rpt-1 /DEF=26S protease regulatory subunit 7; C.elegans cDNA clone yk339d4 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 98      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 58      6grp_total > 96      4grp_total > 48      6grp_highest_sub > In      6grp_cgc > 67      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1648
1 2 3 4 range
A 1873.9
(-3)
P 		3354.6
(3)
P 		3355.9
(3)
P 		2295.1
(-1.3)
P 		1482
B 1708.2
(-3)
P 		2975
(1.8)
P 		3298.1
(3)
P 		2275.1
(-0.9)
P 		1590
C 2009.7
(-2.9)
P 		2836.6
(1.4)
P 		3151.3
(3)
P 		1998.7
(-3)
P 		1153
avr 1863.9
(-3) 		3055.4
(2.1) 		3268.4
(3) 		2189.6
(-1.6) 		1405

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1349
1 2 3 4 5 6 range
A 2050
(-2.7)
P 		2140
(-2.1)
P 		2003.7
(-3)
P 		2409.5
(-0.3)
P 		2490.7
(0.2)
P 		2915
(3)
P 		911
B 1911.5
(-1.2)
P 		1706.4
(-3)
P 		2395.5
(3)
P 		2248.6
(1.7)
P 		2286.6
(2.1)
P 		2336.4
(2.5)
P 		689
C 2427.6
(-0.1)
P 		1855.5
(-3)
P 		2821
(1.8)
P 		2357.9
(-0.5)
P 		3055.4
(3)
P 		3030.8
(2.9)
P 		1200
avr 2129.7
(-1.4) 		1900.6
(-3) 		2406.7
(0.5) 		2338.7
(0.1) 		2610.9
(2) 		2760.7
(3) 		860
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 762
1 2 3 4 range
A 682.3
(0.8)
P 		728.2
(1.3)
P 		877.3
(3)
P 		336
(-3)
P 		541
B 544.7
(-1.7)
P 		734.8
(2.4)
P 		764.2
(3)
P 		484.8
(-3)
P 		279
C 665.3
(-0.4)
P 		815.5
(0.8)
P 		1098.3
(3)
P 		337
(-3)
P 		761
avr 630.8
(-0.2) 		759.5
(1.3) 		913.3
(3) 		385.9
(-3) 		527

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 637
1 2 3 4 5 6 range
A 377.9
(-3)
P 		761.1
(3)
P 		436.4
(-2.1)
P 		611.1
(0.7)
P 		751.6
(2.9)
P 		709.7
(2.2)
P 		383
B 665.1
(-1.4)
P 		568
(-3)
P 		581.7
(-2.8)
P 		595.6
(-2.5)
P 		929
(3)
P 		871.2
(2)
P 		361
C 899.8
(1.7)
P 		566.2
(-2)
P 		718
(-0.3)
P 		474.2
(-3)
P 		988.7
(2.7)
P 		1014.6
(3)
P 		540
avr 647.6
(-1.4) 		631.8
(-1.7) 		578.7
(-2.7) 		560.3
(-3) 		889.8
(3) 		865.2
(2.6) 		330
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173894_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25309
Sequence Type Exemplar sequence
Representative Public ID C44132 NCBI
Target Description C44132 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C52E4.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C44132 /WB_GENE_ID=C52E4.4 /WP=CE08946 /CHR=5 /FEA=Genomic Cluster /GEN=rpt-1 /DEF=26S protease regulatory subunit 7; C.elegans cDNA clone yk339d4 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_073604(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073604 NCBI Caenorhabditis elegans proteasome Regulatory Particle, ATPase-like family member (rpt-1) (rpt-1) mRNA, complete cds. 11/11 None
SNAP00000019786 ENSEMBL cdna:SNAP chromosome:CEL140:V:11983324:11984982:-1 11/11 None
GENEFINDER00000019795 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11983324:11984982:-1 11/11 None
C52E4.4.2 ENSEMBL cdna:known chromosome:CEL140:V:11983064:11985024:-1 gene:C52E4.4 11/11 A 
C52E4.4.3 ENSEMBL cdna:known chromosome:CEL140:V:11983064:11985058:-1 gene:C52E4.4 11/11 None
C52E4.4.1 ENSEMBL cdna:known chromosome:CEL140:V:11983064:11984985:-1 gene:C52E4.4 11/11 A 
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
chrV:11983145-11984983(-) 100.0 100.0
Public Domain and Genome References
Gene Title 26S protease regulatory subunit 7
Gene Symbol rpt-1
Ensembl C52E4.4
Entrez Gene 179641 Entrez gene
SwissProt Q18787 EMBL-EBI
WormBase CE08946 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262227_S_AT 26S proteasome AAA-ATPase subunit (RPT1a) at
CANINE:1590974_S_AT similar to proteasome (prosome, macropain) 26S subunit, ATPase 2 cfa
CANINE:1591564_AT similar to proteasome (prosome, macropain) 26S subunit, ATPase 2 cfa
CANINE_2:CFA.281.1.S1_S_AT similar to proteasome (prosome, macropain) 26S subunit, ATPase 2 cfa
DROSOPHILA_2:1630925_AT dm
DROSGENOME1:143012_AT dm
CHICKEN:GGAAFFX.11569.1.S1_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 gga
HG-U133A:201068_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U133_PLUS_2:201068_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U133A_2:201068_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-FOCUS:201068_S_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U133_PLUS_2:201067_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U133A_2:201067_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U133A:201067_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HUGENEFL:D11094_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
U133_X3P:G4506208_3P_A_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U95AV2:35353_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
HG-U95B:51032_AT proteasome (prosome, macropain) 26S subunit, ATPase, 2 hs
MOE430A:1426611_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOUSE430_2:1426611_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOUSE430A_2:1426611_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MU11KSUBB:MSA.38164.0_F_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MU11KSUBB:MSA.10666.0_F_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MG-U74AV2:95448_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOE430A:1435859_X_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOUSE430A_2:1435859_X_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOUSE430_2:1435859_X_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 mm
MOE430B:1443307_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MOUSE430_2:1443307_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU11KSUBA:AA061073_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU11KSUBB:MSA.15677.0_F_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU19KSUBA:TC23050_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU19KSUBA:TC23050_G_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU19KSUBB:TC34667_F_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
MU19KSUBB:TC34667_R_AT Proteasome (prosome, macropain) 26S subunit, ATPase 2, mRNA (cDNA clone MGC:6418 IMAGE:3590739) mm
RG-U34A:D50694_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 rn
RG-U34A:U13895_S_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 rn
RAE230A:1367711_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 rn
RAT230_2:1367711_AT proteasome (prosome, macropain) 26S subunit, ATPase 2 rn
YEAST_2:1777554_AT One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; required for optimal CDC20 transcription; interacts with Rpn12p and the E3 ubiquitin-protein ligase Ubr1p 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 CAB01414 Hypothetical protein C52E4.4 [Caenorhabditis elegans] ref|NP_506005.1| proteasome Regulatory Particle, ATPase-like family member (rpt-1) [Caenorhabditis elegans] sp|Q18787|PRS7_CAEEL Probable 26S protease regulatory subunit 0.0
blast CAE75362 Hypothetical protein CBG23346 [Caenorhabditis briggsae] 0.0
blast CAH91973 hypothetical protein [Pongo pygmaeus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 4.3E-88
Sequence
Target Sequence 
>C. ELEGANS:173894_S_AT
gaagttcaacgtactatgctcgagttgattaaccaacttgacggattcgatccacgtgga
aacatcaaggtgcttatggcaacaaacagaccggacactctcgatcccgctctcatgaga
cctggtcgattggatcgtaaagtcgaattcgctcttccagaccttgcaggtcgtgctcac
attctcaagattcatgcaaaacaaatgagcgttgaaagagatattcgttatgatttactt
gctcgtctgtgcccaaacagtacaggagccgaaattcgctcagtctgcaccgaagctgga
atgtttgcaattcgtgctagaagaaaggtggcaactgaaaaagatttccttgaagctatc
aataaggttgtcaagggatatgccaaattcagcgccactccaagatatctgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTTCAACGTACTATGCTCGAGT 417 337 899 Antisense
TAACCAACTTGACGGATTCGATCCA 540 637 928 Antisense
AACAAACAGACCGGACACTCTCGAT 160 135 979 Antisense
TAAAGTCGAATTCGCTCTTCCAGAC 255 639 1036 Antisense
AGACCTTGCAGGTCGTGCTCACATT 200 71 1057 Antisense
GTGCTCACATTCTCAAGATTCATGC 512 479 1071 Antisense
TATGATTTACTTGCTCGTCTGTGCC 39 657 1127 Antisense
GTGCCCAAACAGTACAGGAGCCGAA 706 477 1147 Antisense
GAGCCGAAATTCGCTCAGTCTGCAC 66 387 1164 Antisense
GGATATGCCAAATTCAGCGCCACTC 169 511 1274 Antisense
CAGCGCCACTCCAAGATATCTGACA 320 203 1288 Antisense
Sequence Source Affymetrix Proprietary Database