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[173653_at]

Description C69970 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0205.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C69970 /WB_GENE_ID=B0205.3 /WP=CE26355 /CHR=1 /FEA=Genomic Cluster /GEN=rpn-10 /DEF=C.elegans cDNA clone yk370e11 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 0      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 57      6grp_total > 09      4grp_total > 32      6grp_cgc > 0      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1500
1 2 3 4 range
A 1915.3
(-3)
P 		3028.4
(1.7)
P 		3328.3
(3)
P 		2419.6
(-0.9)
P 		1413
B 2034.2
(-3)
P 		2701
(-0.1)
P 		2950.2
(1.1)
P 		3391.1
(3)
P 		1357
C 1890.8
(-3)
P 		2737.4
(0.6)
P 		2879.2
(1.2)
P 		3291.8
(3)
P 		1401
avr 1946.8
(-3) 		2822.3
(1.8) 		3052.6
(3) 		3034.2
(2.9) 		1106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1039
1 2 3 4 5 6 range
A 2901.4
(3)
P 		1984.8
(-3)
P 		2117
(-2.1)
P 		2546.9
(0.7)
P 		2416.6
(-0.2)
P 		2435.5
(-0)
P 		917
B 2465.7
(2.9)
P 		1991.5
(-3)
P 		2143.7
(-1.1)
P 		2477.8
(3)
P 		2129.3
(-1.3)
P 		2194.2
(-0.5)
P 		486
C 2013.9
(-1.7)
P 		1912.3
(-2.6)
P 		2413
(1.7)
P 		2572.2
(3)
P 		2291.6
(0.6)
P 		1862.5
(-3)
P 		710
avr 2460.3
(2.2) 		1962.9
(-3) 		2224.6
(-0.2) 		2532.3
(3) 		2279.2
(0.3) 		2164.1
(-0.9) 		569
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 649
1 2 3 4 range
A 697.4
(1)
P 		657.4
(0.5)
P 		870.1
(3)
P 		354.2
(-3)
P 		516
B 648.7
(-3)
P 		667.1
(-1.5)
P 		683.6
(-0.2)
P 		722.6
(3)
P 		74
C 625.9
(-2.1)
P 		787
(0.1)
P 		1003.5
(3)
P 		555
(-3)
P 		449
avr 657.3
(-0.8) 		703.8
(0.1) 		852.4
(3) 		543.9
(-3) 		309

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 534.8
(-1.3)
P 		705.9
(2.5)
P 		461
(-3)
P 		646
(1.1)
P 		729.2
(3)
P 		593
(-0)
P 		268
B 857.9
(2.9)
P 		662.9
(-0.5)
P 		520.6
(-3)
P 		656.3
(-0.6)
P 		865.1
(3)
P 		818.2
(2.2)
P 		345
C 746.5
(3)
P 		583.5
(-1.3)
P 		614.2
(-0.5)
P 		517.3
(-3)
P 		741.5
(2.9)
P 		623.5
(-0.2)
P 		229
avr 713.1
(1.4) 		650.8
(-0.1) 		531.9
(-3) 		606.5
(-1.2) 		778.6
(3) 		678.2
(0.6) 		247
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173653_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22759
Sequence Type Exemplar sequence
Representative Public ID C69970 NCBI
Target Description C69970 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0205.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C69970 /WB_GENE_ID=B0205.3 /WP=CE26355 /CHR=1 /FEA=Genomic Cluster /GEN=rpn-10 /DEF=C.elegans cDNA clone yk370e11 : 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_060408(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060408 NCBI Caenorhabditis elegans proteasome Regulatory Particle, Non-ATPase-like family member (rpn-10) (rpn-10) mRNA, complete cds. 11/11 None
B0205.3.2 ENSEMBL cdna:known chromosome:CEL140:I:10738850:10740552:-1 gene:B0205.3 11/11 None
B0205.3.1 ENSEMBL cdna:known chromosome:CEL140:I:10738850:10740545:-1 gene:B0205.3 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
chrI:10738798-10740444(-) 93.62 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rpn-10
Ensembl B0205.3
Entrez Gene 172977 Entrez gene
SwissProt O61742 EMBL-EBI
WormBase CE26355 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16591_S_AT 26S proteasome regulatory subunit S5A (RPN10) at
ATH1-121501:252955_AT 26S proteasome regulatory subunit S5A (RPN10) at
DROSOPHILA_2:1635974_AT Proteasome 54kD subunit dm
DROSGENOME1:154023_AT Proteasome 54kD subunit dm
HG-U133_PLUS_2:211609_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A:211609_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A_2:211609_X_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133_PLUS_2:200882_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A:200882_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A_2:200882_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-FOCUS:200882_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133_PLUS_2:210460_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A:210460_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A_2:210460_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133_PLUS_2:210459_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A:210459_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U133A_2:210459_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HUGENEFL:U24704_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
U133_X3P:G8918352_3P_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
U133_X3P:G8918352_3P_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
U133_X3P:G5292160_3P_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
U133_X3P:210459_3P_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
U133_X3P:200882_3P_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
HG-U95AV2:39749_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 hs
MOE430A:1425859_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430A_2:1425859_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430_2:1425859_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430_2:1418874_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOE430A:1418874_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430A_2:1418874_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MU11KSUBA:AF013099_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MG-U74AV2:94302_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOE430A:1451725_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430A_2:1451725_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MOUSE430_2:1451725_A_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 mm
MU19KSUBC:TC37781_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 4, mRNA (cDNA clone MGC:6683 IMAGE:3581937) mm
MU19KSUBC:TC37782_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 4, mRNA (cDNA clone MGC:6683 IMAGE:3581937) mm
RG-U34A:AB017188_G_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RG-U34A:RC_AA799887_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RG-U34A:AB017188_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RG-U34C:RC_AI236731_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RAE230A:1386930_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RAT230_2:1386930_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RAE230B:1392661_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
RAT230_2:1392661_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 rn
YEAST_2:1771328_AT Non-ATPase base subunit of the 19S regulatory particle (RP) of the 26S proteasome; N-terminus plays a role in maintaining the structural integrity of the RP; binds selectively to polyubiquitin chains; homolog of the mammalian S5a protein Sc
Protein Similarities
Method ID Description E-Value
blast AAK66019 Proteasome regulatory particle, non-atpase-like protein 10 [Caenorhabditis elegans] ref|NP_492809.1| proteasome Regulatory Particle, Non-ATPase-like family member (rpn-10) [Caenorhabditis elegans] 1.0E-154
blast D87912 protein B0205.3 [imported] - Caenorhabditis elegans 1.0E-154
blast CAE67355 Hypothetical protein CBG12818 [Caenorhabditis briggsae] 1.0E-133
Protein Domains
Database ID Description E-Value
Pfam IPR003903 EMBL-EBI Ubiquitin interacting motif 3.8E-4
Pfam IPR003903 EMBL-EBI Ubiquitin interacting motif 2.7E-6
Sequence
Target Sequence 
>C. ELEGANS:173653_AT
gagaagaaataaatgtccctgtgaagttgttttattgtattttatcctatttattattga
atcaccatccagccaccccaagtgaatgattttcagtctccaacttcttcttccccgctg
cgtaattctaatttattccatctctcatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAAGAAATAAATGTCCCTGTGAA 676 391 1043 Antisense
AAATGTCCCTGTGAAGTTGTTTTAT 185 119 1053 Antisense
GTCCCTGTGAAGTTGTTTTATTGTA 616 475 1057 Antisense
TTGTATTTTATCCTATTTATTATTG 575 705 1077 Antisense
TATTATTGAATCACCATCCAGCCAC 512 661 1094 Antisense
CATCCAGCCACCCCAAGTGAATGAT 502 211 1108 Antisense
AGCCACCCCAAGTGAATGATTTTCA 45 85 1113 Antisense
ATGATTTTCAGTCTCCAACTTCTTC 642 45 1128 Antisense
TTCTTCCCCGCTGCGTAATTCTAAT 463 689 1150 Antisense
TCCCCGCTGCGTAATTCTAATTTAT 629 595 1154 Antisense
ATTCTAATTTATTCCATCTCTCATT 405 11 1167 Antisense
Sequence Source Affymetrix Proprietary Database