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[187950_s_at]

Description T06D8.8 /REP_DB=WormBase Gene ID /WP=CE02329 /GEN=rpn-9 /TR=Q22253 /GB=CAA88971.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 83      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 55      6grp_total > 74      4grp_total > 49      6grp_cgc > 76      6grp_high1_sub > 04      6grp_cgc_sub > 03_04      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 993
1 2 3 4 range
A 1117
(-3)
P 		1836.8
(2.8)
P 		1863.4
(3)
P 		1558.1
(0.5)
P 		746
B 1348.3
(-2.8)
P 		1778.1
(0.5)
P 		2109.6
(3)
P 		1322.1
(-3)
P 		788
C 1230.1
(-3)
P 		1775.2
(3)
P 		1774.3
(3)
P 		1242.2
(-2.9)
P 		545
avr 1231.8
(-3) 		1796.7
(2) 		1915.8
(3) 		1374.1
(-1.8) 		684

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 804
1 2 3 4 5 6 range
A 1279.5
(-2.3)
P 		1189.9
(-3)
P 		1611.6
(0.3)
P 		1619.8
(0.4)
P 		1951
(3)
P 		1666
(0.8)
P 		761
B 1154.2
(-3)
P 		1207.3
(-2.5)
P 		1763
(2.9)
P 		1524.3
(0.6)
P 		1768.9
(3)
P 		1632
(1.7)
P 		615
C 1150
(-3)
P 		1146.6
(-3)
P 		1691.6
(3)
P 		1636.6
(2.4)
P 		1504.1
(0.9)
P 		1646
(2.5)
P 		545
avr 1194.6
(-2.9) 		1181.3
(-3) 		1688.7
(2.4) 		1593.6
(1.4) 		1741.3
(3) 		1648
(2) 		560
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 409
1 2 3 4 range
A 406.7
(1.1)
P 		398.7
(1)
P 		487.1
(3)
P 		228.1
(-3)
P 		259
B 430
(1.3)
P 		439.2
(1.6)
P 		488.8
(3)
P 		281.7
(-3)
P 		207
C 407.2
(-0.1)
P 		510.4
(1.4)
P 		618.4
(3)
P 		209.5
(-3)
P 		409
avr 414.6
(0.6) 		449.4
(1.3) 		531.4
(3) 		239.8
(-3) 		292

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 483
1 2 3 4 5 6 range
A 235.9
(-3)
P 		423.2
(0.2)
P 		351
(-1)
P 		410.8
(-0)
P 		588.7
(3)
P 		405.6
(-0.1)
P 		353
B 401.6
(-3)
P 		401.8
(-3)
P 		428.1
(-2.5)
P 		403.7
(-3)
P 		718.7
(3)
P 		608.6
(0.9)
P 		317
C 426.3
(-0.4)
P 		349.9
(-2.4)
P 		430.5
(-0.3)
P 		329.1
(-3)
P 		486.7
(1.3)
P 		551
(3)
P 		222
avr 354.6
(-3) 		391.6
(-2.1) 		403.2
(-1.8) 		381.2
(-2.3) 		598
(3) 		521.7
(1.1) 		243
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187950_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3389
Sequence Type Exemplar sequence
Representative Public ID T06D8.8 NCBI
Target Description T06D8.8 /REP_DB=WormBase Gene ID /WP=CE02329 /GEN=rpn-9 /TR=Q22253 /GB=CAA88971.1 /SUBMIT=HINXTON /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_064004(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064004 NCBI Caenorhabditis elegans proteasome Regulatory Particle, Non-ATPase-like family member (rpn-9) (rpn-9) mRNA, complete cds. 11/11 None
SNAP00000001114 ENSEMBL cdna:SNAP chromosome:CEL140:II:11237513:11238824:-1 11/11 None
GENEFINDER00000001125 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11237513:11238824:-1 11/11 None
T06D8.8.1 ENSEMBL cdna:known chromosome:CEL140:II:11237369:11238998:-1 gene:T06D8.8 11/11 None
T06D8.8.2 ENSEMBL cdna:known chromosome:CEL140:II:11237407:11238825:-1 gene:T06D8.8 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:11237509-11238821(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rpn-9
Ensembl T06D8.8
Entrez Gene 174715 Entrez gene
SwissProt Q22253 EMBL-EBI
WormBase CE02329 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.21379.2.S1_AT similar to 26S proteasome non-ATPase regulatory subunit 13 (26S proteasome regulatory subunit S11) (26S proteasome regulatory subunit p40.5) cfa
CANINE_2:CFAAFFX.10656.1.S1_S_AT similar to 26S proteasome non-ATPase regulatory subunit 13 (26S proteasome regulatory subunit S11) (26S proteasome regulatory subunit p40.5) cfa
DROSOPHILA_2:1626488_S_AT dm
DROSGENOME1:153903_AT dm
HG-U133_PLUS_2:201233_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U133A:201233_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U133A_2:201233_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U133_PLUS_2:201232_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U133A:201232_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U133A_2:201232_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-FOCUS:201232_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HU35KSUBA:RC_AA400591_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HU35KSUBD:RC_AA463436_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
U133_X3P:G4506222_3P_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U95AV2:32211_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
HG-U95C:50015_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 hs
MOUSE430_2:1437220_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOUSE430A_2:1437220_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOE430A:1437220_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MG-U74AV2:95742_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOE430A:1422459_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOUSE430A_2:1422459_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOUSE430_2:1422459_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOE430B:1447843_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MOUSE430_2:1447843_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 mm
MU19KSUBA:TC15802_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (Psmd13), mRNA mm
RT-U34:RC_AA858879_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (predicted) rn
RG-U34A:RC_AA858879_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (predicted) rn
RAE230A:1371617_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (predicted) rn
RAT230_2:1371617_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (predicted) rn
YEAST_2:1777094_AT Non-ATPase regulatory subunit of the 26S proteasome, has similarity to putative proteasomal subunits in other species; null mutant is temperature sensitive and exhibits cell cycle and proteasome assembly defects Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5838 proteasome regulatory particle (sensu Eukaryota) inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88971 Hypothetical protein T06D8.8 [Caenorhabditis elegans] ref|NP_496405.1| proteasome Regulatory Particle, Non-ATPase-like family member (rpn-9) [Caenorhabditis elegans] 0.0
blast CAE59546 Hypothetical protein CBG02942 [Caenorhabditis briggsae] 1.0E-164
Protein Domains
Database ID Description E-Value
Pfam IPR000717 EMBL-EBI Proteasome component region PCI 8.7E-25
Sequence
Target Sequence 
>C. ELEGANS:187950_S_AT
gcgaagctcttcgttatcttggagttgaggacgccaataatctgacaacagaacagaagc
aagtccatgcggttcttctcggtttcgctgctcttctgggagaaaacgtgcacaacttcg
gagaattgcttgctcaccccatcctcaaatcgctcgaaggaactcgtgaacgctggatcg
tggacgtgcttcttgccttcaattcgggagatttgacgcgcttcttctcgctcgaaggag
attggggaggctgggacgatttgaagaagcaaaaggatttcctgactgccaaaatccgtc
tgatggctgtcatggaacttgcagtctctcgtccaaccaaagccagaagcgtttcattca
aagaaatcgccacgaagtgccagatcccattcgacgaagttgagttcttggtgatgaagg
cgttgagcaaggatctcattcgtggagatatcaatcaagttgagcaagttgtctacgtga
catgggtgcagccaagagttttagataatcctcagataatgcaaatggcgactcgcattt
ccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAAGCTCTTCGTTATCTTGGAGT 483 289 560 Antisense
GAAGCAAGTCCATGCGGTTCTTCTC 230 341 615 Antisense
GTTTCGCTGCTCTTCTGGGAGAAAA 74 451 641 Antisense
ACTTCGGAGAATTGCTTGCTCACCC 655 103 674 Antisense
CCCCATCCTCAAATCGCTCGAAGGA 580 261 696 Antisense
GAACGCTGGATCGTGGACGTGCTTC 439 343 727 Antisense
TGCTTCTTGCCTTCAATTCGGGAGA 522 577 746 Antisense
AAAATCCGTCTGATGGCTGTCATGG 418 131 850 Antisense
TCATGGAACTTGCAGTCTCTCGTCC 419 623 869 Antisense
AAATCGCCACGAAGTGCCAGATCCC 229 119 923 Antisense
TGCAAATGGCGACTCGCATTTCCGC 169 577 1079 Antisense
Sequence Source Affymetrix Proprietary Database