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[193048_at] vegetative protein X like

Description ZK20.5 /REP_DB=WormBase Gene ID /WP=CE06608 /GEN=rpn-12 /TR=SW:Q23449 /GB=CAA93778.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vegetative protein X like
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 84      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 55      6grp_total > 74      4grp_total > 40      6grp_cgc > 66      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1064
1 2 3 4 range
A 1096.4
(-3)
P 		1901.2
(1.9)
P 		2090.6
(3)
P 		1795.9
(1.2)
P 		994
B 1149.1
(-3)
P 		1721.9
(2)
P 		1833.9
(3)
P 		1492.2
(0)
P 		685
C 1026.2
(-3)
P 		1713
(1.5)
P 		1946.5
(3)
P 		1666.5
(1.2)
P 		920
avr 1090.6
(-3) 		1778.7
(1.8) 		1957
(3) 		1651.5
(0.9) 		866

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1017
1 2 3 4 5 6 range
A 1486
(-1.5)
P 		1375.2
(-3)
P 		1763.4
(2.3)
P 		1466.1
(-1.8)
P 		1818.6
(3)
P 		1628
(0.4)
P 		443
B 1255.1
(-3)
P 		1360.7
(-2)
P 		1889.7
(3)
P 		1841.3
(2.5)
P 		1581.5
(0.1)
P 		1795.7
(2.1)
P 		635
C 1018.9
(-3)
P 		1465.3
(-0.4)
P 		1481
(-0.3)
P 		2035.6
(3)
P 		1363.9
(-1)
P 		1961.6
(2.6)
P 		1017
avr 1253.3
(-3) 		1400.4
(-1.4) 		1711.4
(2.1) 		1781
(2.8) 		1588
(0.7) 		1795.1
(3) 		542
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 416
1 2 3 4 range
A 399.2
(-0.1)
P 		412.7
(0.2)
P 		546.5
(3)
P 		262.9
(-3)
P 		284
B 366.4
(-0.3)
P 		425.3
(3)
P 		424.9
(3)
P 		318
(-3)
P 		107
C 339.7
(-2.1)
P 		492.5
(0.2)
P 		678.4
(3)
P 		281
(-3)
P 		397
avr 368.4
(-1.1) 		443.5
(0.6) 		549.9
(3) 		287.3
(-3) 		263

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 396
1 2 3 4 5 6 range
A 273.9
(-3)
P 		489.1
(1.7)
P 		384
(-0.6)
P 		371.8
(-0.9)
P 		548.8
(3)
P 		396.4
(-0.3)
P 		275
B 436.7
(-3)
P 		452.9
(-2.6)
P 		458.9
(-2.4)
P 		487.7
(-1.7)
P 		642.6
(2.3)
P 		669.6
(3)
P 		233
C 377.6
(-3)
P 		447.1
(-1.5)
P 		376.9
(-3)
P 		409.4
(-2.3)
P 		441.3
(-1.6)
P 		656.7
(3)
P 		280
avr 362.7
(-3) 		463
(-0.2) 		406.6
(-1.8) 		423
(-1.3) 		544.2
(2.1) 		574.2
(3) 		212
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193048_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3136
Sequence Type Exemplar sequence
Representative Public ID ZK20.5 NCBI
Target Description ZK20.5 /REP_DB=WormBase Gene ID /WP=CE06608 /GEN=rpn-12 /TR=SW:Q23449 /GB=CAA93778.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vegetative protein X like
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_064088(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064088 NCBI Caenorhabditis elegans proteasome Regulatory Particle, Non-ATPase-like family member (rpn-12) (rpn-12) mRNA, complete cds. 11/11 None
SNAP00000019231 ENSEMBL cdna:SNAP chromosome:CEL140:II:11653032:11653998:1 11/11 None
GENEFINDER00000019237 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11653032:11653998:1 11/11 None
ZK20.5 ENSEMBL cdna:known chromosome:CEL140:II:11653029:11654081:1 gene:ZK20.5 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:11653028-11653995(+) 100.0 100.0
Public Domain and Genome References
Gene Title vegetative protein X like
Gene Symbol rpn-12
Ensembl ZK20.5
Entrez Gene 174786 Entrez gene
SwissProt Q23449 EMBL-EBI
WormBase CE06608 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261955_AT 26S proteasome regulatory subunit, putative (RPN12) at
CANINE:1597207_S_AT similar to 26S proteasome non-ATPase regulatory subunit 8 (26S proteasome regulatory subunit S14) (p31) cfa
CANINE_2:CFA.786.1.S1_AT similar to 26S proteasome non-ATPase regulatory subunit 8 (26S proteasome regulatory subunit S14) (p31) cfa
CANINE_2:CFAAFFX.9878.1.S1_S_AT similar to 26S proteasome non-ATPase regulatory subunit 8 (26S proteasome regulatory subunit S14) (p31) cfa
DROSOPHILA_2:1640372_AT dm
DROSGENOME1:144246_AT dm
HG-U95AV2:1312_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HC-G110:1312_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HG-U133_PLUS_2:200820_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HG-U133A:200820_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HG-FOCUS:200820_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HG-U133A_2:200820_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HUGENEFL:D38047_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
U133_X3P:G4506232_3P_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
HG-U95AV2:32584_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 hs
MOE430A:1423296_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MOUSE430A_2:1423296_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MOUSE430_2:1423296_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MU11KSUBA:C76407_RC_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MU11KSUBB:MSA.3963.0_S_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MU11KSUBB:MSA.26372.0_F_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MU11KSUBB:MSA.16987.0_F_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MG-U74AV2:98522_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 mm
MU19KSUBA:TC15492_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8, mRNA (cDNA clone MGC:6454 IMAGE:2609781) mm
MU19KSUBA:TC15493_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8, mRNA (cDNA clone MGC:6454 IMAGE:2609781) mm
MU19KSUBA:TC15493_G_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8, mRNA (cDNA clone MGC:6454 IMAGE:2609781) mm
MU19KSUBB:TC33477_AT Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8, mRNA (cDNA clone MGC:6454 IMAGE:2609781) mm
RG-U34C:RC_AI233570_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 (predicted) rn
RAE230A:1389519_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 (predicted) rn
RAT230_2:1389519_AT proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 (predicted) rn
YEAST_2:1777244_AT Subunit of the 19S regulatory particle of the 26S proteasome lid; synthetically lethal with RPT1, which is an ATPase component of the 19S regulatory particle; physically interacts with Nob1p and Rpn3p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5838 proteasome regulatory particle (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
5838 proteasome regulatory particle (sensu Eukaryota) inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93778 Hypothetical protein ZK20.5 [Caenorhabditis elegans] ref|NP_496489.1| proteasome Regulatory Particle, Non-ATPase-like family member (rpn-12) [Caenorhabditis elegans] sp|Q23449|PSD8_CAEEL 26S proteasome non-ATPase regulatory subunit 8 (26S proteasome regulatory subunit rpn-12) 1.0E-137
blast CAE59459 Hypothetical protein CBG02839 [Caenorhabditis briggsae] 1.0E-116
blast AAH68963 LOC414691 protein [Xenopus laevis] 1.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR006746 EMBL-EBI 26S proteasome non-ATPase regulatory subunit Nin1/mts3 4.5E-101
Sequence
Target Sequence 
>C. ELEGANS:193048_AT
gagatttcggtgctcttggcaattctgaagcacgatttcgaaacgttcgacgattacatc
aatcagatgcatacctactatacaatggcgccagaaaattctgaaaacaagcatttaatg
actggactccatctgatgttcctgctcgctgccaacagattgtccgacttccacatgctc
ctcgaacaaattccacagaaagagcaaacatcaaacgcttacatctctacgccagttcgt
attgaacagagtctcatggaaggagcctacaacaaggttgtgctcaccgagaagaatatt
ccaagccccttctacactattttcattcgtattatgcttgacaccatccgtcgcgaaatc
gcaacatctatcgagaagtctttcaaagttctgacagcgaaggatgccacggtcatgctt
ctgttcgacaatgacgaacaaatgaaaaagtttggacaagagagaaaatggcatttggat
ggagagcgttacgttttcgaaattgaggtggctcaggagaagcctgtgaatttggataca
gtgcgagtcgcaactcaaaccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATTTCGGTGCTCTTGGCAATTC 291 397 169 Antisense
ATACCTACTATACAATGGCGCCAGA 31 23 239 Antisense
ACTGGACTCCATCTGATGTTCCTGC 706 95 289 Antisense
CTCGCTGCCAACAGATTGTCCGACT 291 233 313 Antisense
CATGCTCCTCGAACAAATTCCACAG 382 211 342 Antisense
CATCAAACGCTTACATCTCTACGCC 705 213 377 Antisense
CCCTTCTACACTATTTTCATTCGTA 502 257 475 Antisense
GTATTATGCTTGACACCATCCGTCG 549 453 497 Antisense
CAGCGAAGGATGCCACGGTCATGCT 41 203 563 Antisense
CGGTCATGCTTCTGTTCGACAATGA 157 245 578 Antisense
CAGTGCGAGTCGCAACTCAAACCCT 484 207 707 Antisense
Sequence Source Affymetrix Proprietary Database