[Home] | [Total List]

[193503_s_at]

Description C23G10.4A /REP_DB=WormBase Gene ID /WP=CE04049 /GEN=rpn-2 /TR=SW:Q18115 /GB=AAF99872.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=tRNA processing protein SEN3
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 44      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 75      6grp_total > 0      4grp_total > 41      6grp_total_sub > Hat      6grp_cgc > 65      6grp_high1_sub > 02      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 773
1 2 3 4 range
A 1016.4
(-3)
P 		1772.1
(3)
P 		1546
(1.2)
P 		1110.2
(-2.3)
P 		756
B 999.4
(-3)
P 		1559.3
(2.5)
P 		1609.9
(3)
P 		1407
(1)
P 		611
C 1032.1
(-3)
P 		1344.9
(0.5)
P 		1570.1
(3)
P 		1085.2
(-2.4)
P 		538
avr 1016
(-3) 		1558.8
(2.8) 		1575.3
(3) 		1200.8
(-1) 		559

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 633
1 2 3 4 5 6 range
A 600.5
(-3)
P 		1233.5
(3)
P 		775.5
(-1.3)
P 		946.3
(0.3)
P 		778.1
(-1.3)
P 		1161
(2.3)
P 		633
B 711.8
(-1.3)
P 		858.7
(2.5)
P 		646.4
(-3)
P 		762.6
(-0)
P 		824.3
(1.6)
P 		879.5
(3)
P 		233
C 1023.6
(0.2)
P 		839.1
(-2.3)
P 		1228.8
(3)
P 		800.9
(-2.8)
P 		1155.7
(2)
P 		783.9
(-3)
P 		445
avr 778.6
(-3) 		977.1
(3) 		883.6
(0.2) 		836.6
(-1.2) 		919.4
(1.3) 		941.5
(1.9) 		199
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 385
1 2 3 4 range
A 370.1
(2.2)
P 		384.7
(2.5)
P 		404.2
(3)
P 		162.5
(-3)
P 		242
B 318.7
(-1.7)
P 		385.1
(3)
P 		373.1
(2.2)
P 		299.8
(-3)
P 		85
C 341.6
(-0.4)
P 		386.7
(0.4)
P 		547.2
(3)
P 		183
(-3)
P 		364
avr 343.5
(0.4) 		385.5
(1.5) 		441.5
(3) 		215.1
(-3) 		226

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 328
1 2 3 4 5 6 range
A 110.7
(-3)
P 		438.7
(3)
P 		168.9
(-1.9)
P 		240
(-0.6)
P 		234.8
(-0.7)
P 		282.7
(0.1)
P 		328
B 247.7
(0.1)
P 		285.8
(1.3)
P 		157
(-3)
P 		202
(-1.5)
P 		334.9
(3)
P 		328
(2.8)
P 		178
C 379.4
(3)
P 		256
(-0.4)
P 		312.8
(1.2)
P 		161.1
(-3)
P 		374
(2.9)
P 		262.4
(-0.2)
P 		218
avr 245.9
(-0.9) 		326.8
(3) 		212.9
(-2.4) 		201
(-3) 		314.6
(2.4) 		291
(1.3) 		126
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193503_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6398
Sequence Type Exemplar sequence
Representative Public ID C23G10.4A NCBI
Target Description C23G10.4A /REP_DB=WormBase Gene ID /WP=CE04049 /GEN=rpn-2 /TR=SW:Q18115 /GB=AAF99872.1 /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_065946(11), NM_065945(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065946 NCBI Caenorhabditis elegans proteasome Regulatory Particle, Non-ATPase-like family member (rpn-2) (rpn-2) mRNA, complete cds. 11/11 None
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
C23G10.4a.2 ENSEMBL cdna:known chromosome:CEL140:III:6198841:6201277:1 gene:C23G10.4 11/11 None
C23G10.4a.3 ENSEMBL cdna:known chromosome:CEL140:III:6199119:6201277:1 gene:C23G10.4 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.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6198813-6201001(+) 100.0 100.0
Public Domain and Genome References
Ensembl C23G10.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM81115 Proteasome regulatory particle, non-atpase-like protein 2, isoform a [Caenorhabditis elegans] ref|NP_498347.2| proteasome Regulatory Particle, Non-ATPase-like family member (rpn-2) [Caenorhabditis elegans] 0.0
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 0.015
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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498347.2 1 629-651
C23G10.4a.2 1 629-651
C23G10.4a.3 1 629-651
Sequence
Target Sequence 
>C. ELEGANS:193503_S_AT
gaacaagttcaatgcggtcgcttcacttggactcattcatcacggacaagaatcgtctgc
aatgaaggtacttgagccatatttgccaaaggaatctgtcgaaggatttggatttaaaga
gggaggagcaatgctggcatatggattgattcacgccaaacacggagatgcaactgccat
gagcactctggctcagtggctcaaaaccgccgaaaacgagccagtgagacacggagcttg
tcttggatttggagttgctggacttggatcgtcttctgtttcgaattacgagaaagttcg
ggaagttctccaacgtgatgaagcagtttccggagaatccgcaggaatcgccatgggcct
tatcatggctggacatctgaatcaagaggtgttcaatgagctcaagcaatacactgttga
cacacagcatgacaaaactcaacgtggtatccgaactggacttgcctgtgccgcattcgg
actccaaggagatgctgagccttacatcaaagaagcaatcggagctaagagcaatccaat
gctccgttccactggaatctgtatgctgtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACAAGTTCAATGCGGTCGCTTCA 649 351 1257 Antisense
ACTTGGACTCATTCATCACGGACAA 248 105 1281 Antisense
GATTCACGCCAAACACGGAGATGCA 239 431 1404 Antisense
GCAACTGCCATGAGCACTCTGGCTC 69 321 1426 Antisense
TCTGGCTCAGTGGCTCAAAACCGCC 368 607 1443 Antisense
AAACCGCCGAAAACGAGCCAGTGAG 14 127 1460 Antisense
AGTTCGGGAAGTTCTCCAACGTGAT 480 61 1551 Antisense
AGAATCCGCAGGAATCGCCATGGGC 699 73 1590 Antisense
TGGTATCCGAACTGGACTTGCCTGT 519 551 1701 Antisense
GTGCCGCATTCGGACTCCAAGGAGA 235 479 1724 Antisense
TCCACTGGAATCTGTATGCTGTCGA 442 589 1804 Antisense
Sequence Source Affymetrix Proprietary Database