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[193057_s_at] Proteasome A-type and B-type

Description C47B2.4 /REP_DB=WormBase Gene ID /WP=CE17564 /GEN=pbs-2 /TR=O62102 /GB=CAB16855.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Proteasome A-type and B-type
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 50      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 56      6grp_total > 42      4grp_total > 56      6grp_cgc > 70      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2162
1 2 3 4 range
A 1676.8
(-2.9)
P 		2352.8
(-0.6)
P 		3442.2
(3)
P 		1639.3
(-3)
P 		1803
B 1636.5
(-3)
P 		2492.3
(0.6)
P 		3058.1
(3)
P 		1762.3
(-2.5)
P 		1422
C 1822.3
(-1.4)
P 		3224.2
(2.8)
P 		3278.7
(3)
P 		1280.7
(-3)
P 		1998
avr 1711.9
(-2.5) 		2689.8
(1) 		3259.7
(3) 		1560.8
(-3) 		1699

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1586
1 2 3 4 5 6 range
A 1896.4
(-1.4)
P 		2298
(2.6)
P 		2334.3
(3)
P 		2161.9
(1.3)
P 		1818.2
(-2.2)
P 		1738.8
(-3)
P 		596
B 2241.5
(1)
P 		1808.8
(-0.9)
P 		2698.2
(3)
P 		2455.3
(1.9)
P 		2020.3
(0)
P 		1336.6
(-3)
P 		1362
C 2911.4
(3)
P 		1694.4
(-1.6)
P 		2630.3
(1.9)
P 		2302.4
(0.7)
P 		2237.1
(0.4)
P 		1325.9
(-3)
P 		1586
avr 2349.8
(1.9) 		1933.7
(-0.4) 		2554.3
(3) 		2306.5
(1.6) 		2025.2
(0.1) 		1467.1
(-3) 		1087
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 927
1 2 3 4 range
A 610.5
(0.4)
P 		510.7
(-0.5)
P 		899.9
(3)
P 		240
(-3)
P 		660
B 521.9
(-0.4)
P 		615.5
(1.3)
P 		708.6
(3)
P 		375.5
(-3)
P 		333
C 603.2
(-0.5)
P 		927
(1.6)
P 		1142.7
(3)
P 		215.9
(-3)
P 		927
avr 578.5
(-0.2) 		684.4
(0.8) 		917.1
(3) 		277.1
(-3) 		640

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 730
1 2 3 4 5 6 range
A 349.6
(-3)
P 		817.3
(3)
P 		508.4
(-1)
P 		548.3
(-0.5)
P 		548.7
(-0.4)
P 		423.4
(-2.1)
P 		468
B 779.9
(2.2)
P 		602.1
(-1.1)
P 		655.2
(-0.1)
P 		650.3
(-0.2)
P 		820.8
(3)
P 		498.4
(-3)
P 		322
C 1079.1
(3)
P 		517
(-2.3)
P 		669.4
(-0.9)
P 		463
(-2.8)
P 		723.9
(-0.4)
P 		443.9
(-3)
P 		635
avr 736.2
(3) 		645.5
(1.1) 		611
(0.3) 		553.9
(-0.9) 		697.8
(2.2) 		455.2
(-3) 		281
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193057_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2144
Sequence Type Exemplar sequence
Representative Public ID C47B2.4 NCBI
Target Description C47B2.4 /REP_DB=WormBase Gene ID /WP=CE17564 /GEN=pbs-2 /TR=O62102 /GB=CAB16855.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Proteasome A-type and B-type
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_060870(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060870 NCBI Caenorhabditis elegans Proteasome Beta Subunit family member (pbs-2) (pbs-2) mRNA, complete cds. 11/11 None
SNAP00000041230 ENSEMBL cdna:SNAP chromosome:CEL140:I:12975508:12976399:-1 11/11 None
GENEFINDER00000041240 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12975508:12976399:-1 11/11 None
C47B2.4 ENSEMBL cdna:known chromosome:CEL140:I:12975336:12976402:-1 gene:C47B2.4 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:12975438-12976330(-) 100.0 100.0
Public Domain and Genome References
Gene Title Proteasome A-type and B-type
Gene Symbol pbs-2
Ensembl C47B2.4
Entrez Gene 173168 Entrez gene
SwissProt O62102 EMBL-EBI
WormBase CE17564 Wormbase
Functional Annotations
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 CAB16855 Hypothetical protein C47B2.4 [Caenorhabditis elegans] ref|NP_493271.1| Proteasome Beta Subunit family member (pbs-2) [Caenorhabditis elegans] 1.0E-158
blast CAE63471 Hypothetical protein CBG07938 [Caenorhabditis briggsae] 1.0E-152
blast XP_329729 hypothetical protein [Neurospora crassa] gb|EAA34801.1| hypothetical protein [Neurospora crassa] 1.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR001353 EMBL-EBI Peptidase T1, 20S proteasome 1.7E-66
Sequence
Target Sequence 
>C. ELEGANS:193057_S_AT
gaaggttcacaagctcactgagtcgatctatgcctgcggagccggaaccgccgccgatct
cgatcaagtcacaaagatgctctctggaaatctccgtcttctggaattaaacaccgggcg
caaggctcgtgtgatcaccgctcttcgtcaagctaagcagcatcttttcaactatcaagg
atacatcggagcctacttgctcattggaggagtcgatccaactggcccacatctttatat
gtgctccgccaacggaactacaatggccttcccattcacagctcaaggatctggatcata
tgcagctatcactattttggagcgtgattttaaggttgatatgacgaaagatgaagccga
gaagcttgtccaacgcgccctggaagccggtatgcacggtgacaacgcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGTTCACAAGCTCACTGAGTCG 525 333 246 Antisense
TCACTGAGTCGATCTATGCCTGCGG 391 623 260 Antisense
AAGATGCTCTCTGGAAATCTCCGTC 182 155 319 Antisense
AATTAAACACCGGGCGCAAGGCTCG 707 167 350 Antisense
CGCTCTTCGTCAAGCTAAGCAGCAT 11 255 384 Antisense
ATCCAACTGGCCCACATCTTTATAT 385 41 461 Antisense
CTTTATATGTGCTCCGCCAACGGAA 704 219 478 Antisense
AACGGAACTACAATGGCCTTCCCAT 481 139 496 Antisense
CTTCCCATTCACAGCTCAAGGATCT 314 219 513 Antisense
GGATCATATGCAGCTATCACTATTT 372 511 538 Antisense
GCCGGTATGCACGGTGACAACGCCT 72 285 631 Antisense
Sequence Source Affymetrix Proprietary Database