[Home] | [Total List]

[190159_s_at] Peptidase

Description Y38A8.2 /REP_DB=WormBase Gene ID /WP=CE07571 /GEN=pbs-3 /TR=Q23237 /GB=AAA98018.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Peptidase
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 82      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 46      6grp_total > 70      4grp_total > 57      6grp_highest_sub > 04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1397
1 2 3 4 range
A 2364.6
(-2.2)
P 		3288.2
(1.8)
P 		3549.4
(3)
P 		2189
(-3)
P 		1360
B 2425.7
(-2.6)
P 		3066.6
(0.8)
P 		3467.7
(3)
P 		2354.5
(-3)
P 		1113
C 2229.9
(-2.6)
P 		3268.7
(2.1)
P 		3457.5
(3)
P 		2152.5
(-3)
P 		1305
avr 2340.1
(-2.5) 		3207.8
(1.6) 		3491.5
(3) 		2232
(-3) 		1260

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2328
1 2 3 4 5 6 range
A 2479.2
(-3)
P 		2788.6
(-1.8)
P 		2847.3
(-1.5)
P 		3999.7
(3)
P 		2889.3
(-1.4)
P 		2619.2
(-2.4)
P 		1521
B 2425.6
(-3)
P 		2502.5
(-2.7)
P 		3008.2
(-0.7)
P 		3923
(3)
P 		3122.5
(-0.2)
P 		2644.2
(-2.1)
P 		1497
C 2401.1
(-3)
P 		2442.9
(-2.9)
P 		3483.9
(-0.2)
P 		4728.9
(3)
P 		2667.2
(-2.3)
P 		2670.9
(-2.3)
P 		2328
avr 2435.3
(-3) 		2578
(-2.5) 		3113.1
(-0.7) 		4217.2
(3) 		2893
(-1.5) 		2644.8
(-2.3) 		1782
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 885
1 2 3 4 range
A 861
(2.3)
P 		713.8
(0.9)
P 		927.9
(3)
P 		320.4
(-3)
P 		608
B 773.5
(2.4)
P 		757.4
(2.1)
P 		803.5
(3)
P 		501.7
(-3)
P 		302
C 738.2
(-0.3)
P 		939.8
(1.1)
P 		1205.1
(3)
P 		362.9
(-3)
P 		842
avr 790.9
(1.1) 		803.7
(1.2) 		978.8
(3) 		395
(-3) 		584

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 812
1 2 3 4 5 6 range
A 457
(-3)
P 		991.8
(2.8)
P 		620.1
(-1.2)
P 		1014.4
(3)
P 		871.9
(1.5)
P 		637.7
(-1.1)
P 		557
B 844
(-1.7)
P 		833
(-1.9)
P 		730.5
(-3)
P 		1039.1
(0.4)
P 		1268.6
(3)
P 		986
(-0.2)
P 		538
C 890
(1.2)
P 		745.4
(-3)
P 		886.7
(1.1)
P 		951
(3)
P 		863.1
(0.4)
P 		894.1
(1.3)
P 		206
avr 730.3
(-3) 		856.7
(-0.2) 		745.8
(-2.7) 		1001.5
(3) 		1001.2
(3) 		839.3
(-0.6) 		271
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190159_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4573
Sequence Type Exemplar sequence
Representative Public ID Y38A8.2 NCBI
Target Description Y38A8.2 /REP_DB=WormBase Gene ID /WP=CE07571 /GEN=pbs-3 /TR=Q23237 /GB=AAA98018.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Peptidase
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_062512(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062512 NCBI Caenorhabditis elegans Y38A8.2 (Peptidase) mRNA, complete cds. 11/11 A 
SNAP00000028505 ENSEMBL cdna:SNAP chromosome:CEL140:II:4954658:4955372:-1 11/11 None
GENEFINDER00000028510 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4954658:4955372:-1 11/11 None
Y38A8.2.2 ENSEMBL cdna:known chromosome:CEL140:II:4954485:4955414:-1 gene:Y38A8.2 11/11 None
Y38A8.2.1 ENSEMBL cdna:known chromosome:CEL140:II:4954485:4955412:-1 gene:Y38A8.2 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:4954655-4955370(-) 100.0 100.0
Public Domain and Genome References
Gene Title Peptidase
Gene Symbol pbs-3
Ensembl Y38A8.2
Entrez Gene 173858 Entrez gene
SwissProt Q23237 EMBL-EBI
WormBase CE07571 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259712_AT 20S proteasome beta subunit C (PBC2) at
CANINE:1583481_AT similar to Proteasome subunit beta type 3 (Proteasome theta chain) (Proteasome chain 13) (Proteasome component C10-II) cfa
CANINE_2:CFA.11683.1.A1_S_AT similar to Proteasome subunit beta type 3 (Proteasome theta chain) (Proteasome chain 13) (Proteasome component C10-II) cfa
CANINE_2:CFA.12625.1.A1_S_AT similar to Proteasome subunit beta type 3 (Proteasome theta chain) (Proteasome chain 13) (Proteasome component C10-II) cfa
CANINE_2:CFA.12625.1.A1_X_AT similar to Proteasome subunit beta type 3 (Proteasome theta chain) (Proteasome chain 13) (Proteasome component C10-II) cfa
DROSOPHILA_2:1623021_AT dm
DROSGENOME1:153880_AT dm
CHICKEN:GGA.1459.1.S1_AT proteasome (prosome, macropain) subunit, beta type, 3 gga
HG-U133A_2:201400_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HG-U133_PLUS_2:201400_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HG-U133A:201400_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HG-FOCUS:201400_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HG-U95AV2:1309_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HC-G110:1309_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
HUGENEFL:D26598_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
U133_X3P:G4506196_3P_AT proteasome (prosome, macropain) subunit, beta type, 3 hs
MU11KSUBA:C76949_RC_S_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MU11KSUBA:AA407689_RC_S_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MG-U74AV2:94025_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MG-U74CV2:171521_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOE430A:1417052_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOUSE430A_2:1417052_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOUSE430_2:1417052_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOE430A:1460198_A_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOUSE430A_2:1460198_A_AT proteasome (prosome, macropain) subunit, beta type 3 mm
MOUSE430_2:1460198_A_AT proteasome (prosome, macropain) subunit, beta type 3 mm
RG-U34A:D21800_AT proteasome (prosome, macropain) subunit, beta type 3 rn
RG-U34A:D21800_G_AT proteasome (prosome, macropain) subunit, beta type 3 rn
RG-U34C:RC_AI235296_AT proteasome (prosome, macropain) subunit, beta type 3 rn
RAE230A:1398853_AT proteasome (prosome, macropain) subunit, beta type 3 rn
RAT230_2:1398853_AT proteasome (prosome, macropain) subunit, beta type 3 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6511 ubiquitin-dependent protein catabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5839 proteasome core complex (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4175 endopeptidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA98018 Proteasome beta subunit protein 3 [Caenorhabditis elegans] ref|NP_494913.1| Y38A8.2 [Caenorhabditis elegans] sp|Q23237|PSB3_CAEEL Proteasome subunit beta type 3 (Proteasome subunit beta 3) 1.0E-114
blast CAE59013 Hypothetical protein CBG02289 [Caenorhabditis briggsae] 1.0E-113
Protein Domains
Database ID Description E-Value
Pfam IPR001353 EMBL-EBI Peptidase T1, 20S proteasome 9.8E-58
Sequence
Target Sequence 
>C. ELEGANS:190159_S_AT
gagctacactggtggaaccgtcgtcgccatggctggagacgaatgtgtgtgcattgcttc
ggatcttcgtattggagagcagatgacaacaattgcaactgatcagaagaaagtgcataa
ggtgacagacaaggtctacgtaggacttgctggattccaatccgatgctcgcacagtctt
ggagaaaattatgttccgcaagaatttgtatgagctccgtgagaatcgcaacatcaagcc
acaagtgttgtccgagatgatctcgaatctggcttatcagcaccgctttggcagttattt
caccgagccactcgttgctggtttggacgacaccaacaagccatatatctgctgcatgga
cactatcggatgtgtatctgctccacgcgatttcgttgctgtcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTACACTGGTGGAACCGTCGTC 240 385 24 Antisense
TGTGTGTGCATTGCTTCGGATCTTC 314 555 67 Antisense
TCCGATGCTCGCACAGTCTTGGAGA 328 595 184 Antisense
GAGCTCCGTGAGAATCGCAACATCA 657 387 235 Antisense
CTCGAATCTGGCTTATCAGCACCGC 111 233 285 Antisense
GCACCGCTTTGGCAGTTATTTCACC 418 315 303 Antisense
TTATTTCACCGAGCCACTCGTTGCT 593 675 318 Antisense
GGACGACACCAACAAGCCATATATC 74 523 348 Antisense
TATCTGCTGCATGGACACTATCGGA 426 657 369 Antisense
TATCGGATGTGTATCTGCTCCACGC 362 659 387 Antisense
TCCACGCGATTTCGTTGCTGTCGGA 586 589 405 Antisense
Sequence Source Affymetrix Proprietary Database