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[189994_at]

Description C23G10.4B /REP_DB=WormBase Gene ID /WP=CE24810 /GB=AAF99873.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=tRNA processing protein SEN3
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_highest_8_8 > 03      4grp_high_8_8 > 38      6grp_highest_nonorm > 57      6grp_total > 49      4grp_total > 41      6grp_highest_sub > Cu      6grp_cgc > 07      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1379
1 2 3 4 range
A 2213.2
(-3)
P 		3541.1
(3)
P 		3194.4
(1.4)
P 		3043.8
(0.8)
P 		1328
B 2367.6
(-3)
P 		3151.7
(2.1)
P 		3294.4
(3)
P 		3008.4
(1.1)
P 		927
C 2161.9
(-3)
P 		3301.7
(3)
P 		3222.3
(2.6)
P 		2425.6
(-1.6)
P 		1140
avr 2247.6
(-3) 		3331.5
(3) 		3237
(2.5) 		2825.9
(0.2) 		1084

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 888
1 2 3 4 5 6 range
A 2547
(1.9)
P 		2419.7
(1)
P 		1827.8
(-3)
P 		2102.2
(-1.1)
P 		2147.2
(-0.8)
P 		2715.3
(3)
P 		888
B 2150.7
(0.8)
P 		1994.5
(-1.6)
P 		2066.9
(-0.5)
P 		2286.6
(3)
P 		1909.6
(-3)
P 		2059.7
(-0.6)
P 		377
C 2385.7
(1.6)
P 		2011
(-2.2)
P 		2495.9
(2.7)
P 		1932
(-3)
P 		2527.4
(3)
P 		2236.2
(0.1)
P 		595
avr 2361.1
(3) 		2141.7
(-2.2) 		2130.2
(-2.5) 		2106.9
(-3) 		2194.7
(-0.9) 		2337.1
(2.4) 		254
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 714
1 2 3 4 range
A 805.8
(2.5)
P 		768.7
(2)
P 		835.1
(3)
P 		445.6
(-3)
P 		390
B 755
(2)
P 		778.4
(3)
P 		763.4
(2.3)
P 		641.1
(-3)
P 		137
C 715.6
(-0.4)
P 		949.3
(1.5)
P 		1123.1
(3)
P 		409
(-3)
P 		714
avr 758.8
(0.8) 		832.1
(1.9) 		907.2
(3) 		498.6
(-3) 		409

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 496
1 2 3 4 5 6 range
A 469.5
(-2.1)
P 		860.6
(3)
P 		398.1
(-3)
P 		533.2
(-1.2)
P 		647.9
(0.2)
P 		661.1
(0.4)
P 		463
B 748.3
(2.4)
P 		663.9
(0.5)
P 		501.9
(-3)
P 		605.6
(-0.7)
P 		775.9
(3)
P 		768.1
(2.8)
P 		274
C 884.3
(3)
P 		613.6
(-0.3)
P 		635.3
(-0)
P 		388.5
(-3)
P 		817.8
(2.2)
P 		748.6
(1.4)
P 		496
avr 700.7
(1.8) 		712.7
(2.1) 		511.8
(-2.9) 		509.1
(-3) 		747.2
(3) 		725.9
(2.5) 		238
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189994_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6380
Sequence Type Exemplar sequence
Representative Public ID C23G10.4B NCBI
Target Description C23G10.4B /REP_DB=WormBase Gene ID /WP=CE24810 /GB=AAF99873.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=tRNA processing protein SEN3
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_065945(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065945 NCBI Caenorhabditis elegans proteasome Regulatory Particle, Non-ATPase-like family member (rpn-2) (rpn-2) mRNA, complete cds. 11/11 A 
SNAP00000025616 ENSEMBL cdna:SNAP chromosome:CEL140:III:6199125:6202365:1 11/11 None
GENEFINDER00000025635 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6199125:6202365:1 11/11 None
C23G10.4b ENSEMBL cdna:known chromosome:CEL140:III:6199125:6202533:1 gene:C23G10.4 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175877 2 1 NM_065945 189994_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6198813-6202364(+) 100.0 100.0
Public Domain and Genome References
Ensembl C23G10.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM81116 Proteasome regulatory particle, non-atpase-like protein 2, isoform b [Caenorhabditis elegans] ref|NP_498346.2| proteasome Regulatory Particle, Non-ATPase-like family member (rpn-2) [Caenorhabditis elegans] sp|Q18115|PSD1_CAEEL 26S proteasome non-ATPase regulatory subunit 1 (26S proteasome regulatory subunit rpn-2) 0.0
blast T15576 hypothetical protein C23G10.4b - Caenorhabditis elegans 0.0
blast CAE56537 Hypothetical protein CBG24264 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 4.4E-6
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 1.5E-8
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 0.0068
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 7.3E-10
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 0.38
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 6.3E-11
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 1.0E-4
Pfam IPR002015 EMBL-EBI Proteasome/cyclosome, regulatory subunit 4.9E-5
Sequence
Target Sequence 
>C. ELEGANS:189994_AT
ctgctaagccatcatgccttgtgatgatgaacgagaatctgaagattccagtacttgact
acatctgccatgccaatagtcagaagtttgcctatccaccacgagccgaatcaaagaagg
ataaggatgtcaaaaagattgagactgttgttctgtccatcaccggaaagaagaatgcgt
caaagaagctgatcgctgaggagaaaaaaagacgagaagctgcagcttccgcttctagtg
ctgctgctgccccatcatcatcgtccacttcaggaacagcaccagctgctgaagatgaga
aaatggaggttgatcaaccaggaaaatccaagaaagaaaaggctccagaaaaggacacga
agccattgcaccgcctacagaatccagctcgtgtgattcctgctcaacgacagctaatct
cgatcagtgacgctcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGCTAAGCCATCATGCCTTGTGAT 297 237 2366 Antisense
GATTCCAGTACTTGACTACATCTGC 221 433 2409 Antisense
CTACATCTGCCATGCCAATAGTCAG 156 227 2424 Antisense
TAGTCAGAAGTTTGCCTATCCACCA 77 655 2442 Antisense
CTATCCACCACGAGCCGAATCAAAG 39 225 2457 Antisense
TGAGACTGTTGTTCTGTCCATCACC 364 569 2505 Antisense
CATCGTCCACTTCAGGAACAGCACC 612 209 2624 Antisense
AAAAGGACACGAAGCCATTGCACCG 568 131 2714 Antisense
GAATCCAGCTCGTGTGATTCCTGCT 280 331 2745 Antisense
GATTCCTGCTCAACGACAGCTAATC 620 433 2760 Antisense
AGCTAATCTCGATCAGTGACGCTCG 198 79 2777 Antisense
Sequence Source Affymetrix Proprietary Database