[Home] | [Total List]

[188262_s_at]

Description B0205.3 /REP_DB=WormBase Gene ID /WP=CE26355 /GEN=rpn-10 /TR=O61742 /GB=AAK66019.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 83      4grp_highest_8_8 > 13      4grp_high_8_8 > 30      6grp_highest_nonorm > 86      6grp_total > 09      4grp_total > 24      6grp_highest_sub > 04      6grp_cgc > 90      6grp_high1_sub > 04      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 815
1 2 3 4 range
A 928.8
(-3)
P 		1144.5
(-1)
P 		1193
(-0.5)
P 		1565.1
(3)
P 		636
B 757
(-3)
P 		1154.9
(0.5)
P 		1306.5
(1.8)
P 		1447.7
(3)
P 		691
C 749.9
(-3)
P 		1026.6
(-0.7)
P 		1138.9
(0.2)
P 		1482.2
(3)
P 		732
avr 811.9
(-3) 		1108.7
(-0.4) 		1212.8
(0.5) 		1498.3
(3) 		686

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 410
1 2 3 4 5 6 range
A 898.7
(-0.2)
P 		821.9
(-3)
P 		955.9
(1.9)
P 		987.3
(3)
P 		866.2
(-1.4)
P 		900.1
(-0.2)
P 		165
B 1144.6
(3)
P 		753.6
(-3)
P 		995.9
(0.7)
P 		1045.4
(1.5)
P 		1046.5
(1.5)
P 		1004.3
(0.8)
P 		391
C 1020.5
(0.8)
P 		766
(-3)
P 		1163.6
(3)
P 		966.3
(0)
P 		1078.9
(1.7)
P 		971.3
(0.1)
P 		398
avr 1021.3
(2.6) 		780.5
(-3) 		1038.5
(3) 		999.7
(2.1) 		997.2
(2) 		958.6
(1.1) 		258
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 338.2
(3)
P 		248.4
(-1.9)
P 		311.9
(1.6)
P 		229.1
(-3)
P 		109
B 241.4
(-3)
P 		285.2
(0.9)
P 		302.8
(2.5)
P 		308.5
(3)
P 		67
C 248.2
(-3)
P 		295.1
(-1.1)
P 		396.9
(3)
P 		249.9
(-2.9)
P 		149
avr 275.9
(-1.9) 		276.2
(-1.9) 		337.2
(3) 		262.5
(-3) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 260
1 2 3 4 5 6 range
A 165.7
(-3)
P 		292.3
(3)
P 		208.2
(-1)
P 		250.4
(1)
P 		261.4
(1.5)
P 		219.1
(-0.5)
P 		127
B 398.3
(2.1)
P 		250.8
(-2.7)
P 		241.8
(-3)
P 		276.9
(-1.9)
P 		425.2
(3)
P 		374.5
(1.3)
P 		183
C 378.3
(3)
P 		233.7
(-1.7)
P 		296.2
(0.3)
P 		194.3
(-3)
P 		349.1
(2)
P 		325.2
(1.3)
P 		184
avr 314.1
(1.2) 		258.9
(-1.9) 		248.7
(-2.5) 		240.5
(-3) 		345.2
(3) 		306.3
(0.8) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188262_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1627
Sequence Type Exemplar sequence
Representative Public ID B0205.3 NCBI
Target Description B0205.3 /REP_DB=WormBase Gene ID /WP=CE26355 /GEN=rpn-10 /TR=O61742 /GB=AAK66019.1 /SUBMIT=ST.LOUIS /CHR=1 /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_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
SNAP00000024668 ENSEMBL cdna:SNAP chromosome:CEL140:I:10739049:10740512:-1 11/11 None
GENEFINDER00000024676 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10739049:10740512:-1 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:10738979-10740443(-) 92.51 100.0
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
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:188262_S_AT
tgtgcgacgtcatcatgttcggtgaaaatgaatccgatggacatgagaaattctcaacat
tcgtggacacattgaacggaaaagaaggcagcggctcatccttgatcgttgttccacaag
gatcttccctcacagacgcgttgttgcagtcaagtgtatgcaaaaatgaagatgggcaag
ctgcattcggtggaggtggaaacggaatggataatgcattcggaatggatgttgaaaatg
atccagatttggctttagctcttcgtgtctcaatggaagaggaacgagctcgtcaagccg
ccgccgctgctgcaaatggaggtgccgcggattctggagctgatgccgaagttgctgctg
cggctgctgctgttccattggaagaaatggacatgggagcgatgactgaagagcaacaat
tggaatgggctcttcgtctttcaatgcaggaaaatgctccggctgagcagccacaagtac
aacacgaacaaatggatgtggatggagctccagcagttggaggagacaatcttgatgatt
tgatgaacaacccagaacttttgcagcaaattgtggacgatcttcctgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGCGACGTCATCATGTTCGGTGA 240 555 425 Antisense
AATTCTCAACATTCGTGGACACATT 201 177 473 Antisense
AAAGAAGGCAGCGGCTCATCCTTGA 569 121 505 Antisense
ATCGTTGTTCCACAAGGATCTTCCC 605 31 529 Antisense
CCCTCACAGACGCGTTGTTGCAGTC 634 259 551 Antisense
TGGGCAAGCTGCATTCGGTGGAGGT 424 553 597 Antisense
GCCGCTGCTGCAAATGGAGGTGCCG 508 277 727 Antisense
CCGCGGATTCTGGAGCTGATGCCGA 406 263 749 Antisense
AATTGGAATGGGCTCTTCGTCTTTC 578 177 842 Antisense
GGCTGAGCAGCCACAAGTACAACAC 132 541 885 Antisense
GCAAATTGTGGACGATCTTCCTGCT 564 317 990 Antisense
Sequence Source Affymetrix Proprietary Database