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[187777_at]

Description B0025.3 /REP_DB=WormBase Gene ID /WP=CE07664 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:O01422 protein_id:AAB52366.1
Cluster 6grp_total > 49      4grp_total > 27      6grp_cgc > 09      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 145
1 2 3 4 range
A 104.2
(2.6)
A 		10.6
(-3)
A 		110.8
(3)
A 		54.5
(-0.4)
A 		100
B 59.7
(-1.7)
A 		94.4
(0.5)
A 		39.5
(-3)
M 		133.7
(3)
A 		94
C 50.2
(-3)
A 		156
(3)
M 		58.1
(-2.6)
A 		106.9
(0.2)
P 		106
avr 71.4
(-2.6) 		87
(0.6) 		69.5
(-3) 		98.4
(3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 129
(-0.4)
M 		95.3
(-3)
P 		108.6
(-2)
A 		97.4
(-2.8)
A 		171.9
(3)
A 		157.8
(1.9)
A 		77
B 132.5
(1)
A 		90.1
(-3)
A 		138.9
(1.6)
A 		140
(1.7)
M 		147.8
(2.5)
M 		153.5
(3)
A 		63
C 190
(3)
P 		125.7
(0.1)
A 		56.7
(-3)
A 		137.8
(0.7)
P 		123.9
(0)
A 		149.8
(1.2)
A 		133
avr 150.5
(2.6) 		103.7
(-2.7) 		101.4
(-3) 		125.1
(-0.3) 		147.9
(2.3) 		153.7
(3) 		52
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 37.9
(3)
A 		2.3
(-3)
A 		29
(1.5)
A 		8
(-2)
A 		36
B 19
(0)
A 		23.3
(1.4)
A 		9.2
(-3)
M 		28.5
(3)
A 		19
C 16.6
(-3)
A 		44.8
(3)
M 		20.3
(-2.2)
A 		18
(-2.7)
P 		28
avr 24.5
(3) 		23.5
(2) 		19.5
(-1.8) 		18.2
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 23.8
(-3)
M 		33.9
(-0.8)
P 		23.7
(-3)
A 		24.7
(-2.8)
A 		51.9
(3)
A 		38.4
(0.1)
A 		28
B 46.1
(0.2)
A 		30
(-3)
A 		33.7
(-2.3)
A 		37.1
(-1.6)
M 		60.1
(3)
M 		57.2
(2.4)
A 		30
C 70.4
(3)
P 		38.3
(-0.4)
A 		14.4
(-3)
A 		27.7
(-1.6)
P 		40.1
(-0.2)
A 		50.1
(0.8)
A 		56
avr 46.8
(2.1) 		34.1
(-0.7) 		23.9
(-3) 		29.8
(-1.7) 		50.7
(3) 		48.6
(2.5) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187777_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1318
Sequence Type Exemplar sequence
Representative Public ID B0025.3 NCBI
Target Description B0025.3 /REP_DB=WormBase Gene ID /WP=CE07664 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:O01422 protein_id:AAB52366.1
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Consensus/Exemplar Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade C annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059339
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059339 NCBI Caenorhabditis elegans COP-9 SigNalosome subunit family member (csn-2) (csn-2) mRNA, complete cds. None
SNAP00000033234 ENSEMBL cdna:SNAP chromosome:CEL140:I:6030818:6032164:1 None
GENEFINDER00000033242 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6030818:6034891:1 None
B0025.2.2 ENSEMBL cdna:known chromosome:CEL140:I:6030795:6035001:1 gene:B0025.2 None
B0025.2.1 ENSEMBL cdna:known chromosome:CEL140:I:6030802:6035001:1 gene:B0025.2 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:6030817-6032850(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol csn-2
Ensembl B0025.2
Entrez Gene 172278 Entrez gene
SwissProt O01422 EMBL-EBI
WormBase CE27562 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13006_AT COP9 signalosome complex subunit 2 / CSN complex subunit 2 (CSN2) at
ATH1-121501:266310_AT COP9 signalosome complex subunit 2 / CSN complex subunit 2 (CSN2) at
CANINE:1604246_AT similar to COP9 (constitutive photomorphogenic) homolog, subunit 2 cfa
CANINE_2:CFA.1769.1.S1_AT similar to COP9 (constitutive photomorphogenic) homolog, subunit 2 cfa
CANINE_2:CFAAFFX.22882.1.S1_S_AT similar to COP9 (constitutive photomorphogenic) homolog, subunit 2 cfa
DROSOPHILA_2:1638830_AT alien dm
DROSGENOME1:141726_AT alien dm
CHICKEN:GGAAFFX.13007.1.S1_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) gga
CHICKEN:GGAAFFX.21101.1.S1_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) gga
HG-U95AV2:248_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HC-G110:248_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133_PLUS_2:202467_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133A_2:202467_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133A:202467_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-FOCUS:202467_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HU35KSUBA:RC_AA458919_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HUGENEFL:L40388_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
U133_X3P:G4759263_3P_A_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U95AV2:34323_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HU35KSUBC:RC_AA496247_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HU35KSUBD:RC_AA278852_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
U133_X3P:HS.30212.1.S2_3P_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133A_2:209838_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133_PLUS_2:209838_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U133A:209838_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U95C:53780_S_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U95C:53783_R_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
HG-U95C:65584_AT COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) hs
MG-U74AV2:98540_G_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MG-U74AV2:98539_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MG-U74BV2:111954_R_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOE430A:1423459_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOUSE430A_2:1423459_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOUSE430_2:1423459_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOE430A:1437039_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOUSE430A_2:1437039_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MOUSE430_2:1437039_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) mm
MU19KSUBC:TC39227_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana), mRNA (cDNA clone MGC:18349 IMAGE:3675508) mm
MU19KSUBC:TC39227_G_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana), mRNA (cDNA clone MGC:18349 IMAGE:3675508) mm
MU19KSUBC:TC41441_S_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana), mRNA (cDNA clone MGC:18349 IMAGE:3675508) mm
RG-U34C:RC_AI169377_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAE230A:1373029_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAT230_2:1373029_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAE230B:1383819_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAT230_2:1383819_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAE230B:1384366_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RAT230_2:1384366_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
RG-U34C:RC_AI233965_AT COP9 (constitutive photomorphogenic) homolog, subunit 2 (Arabidopsis thaliana) rn
Protein Similarities
Method ID Description E-Value
blast AAB52366 Cop-9 signalosome subunit protein 2 [Caenorhabditis elegans] ref|NP_491740.1| COP-9 SigNalosome subunit family member (csn-2) [Caenorhabditis elegans] sp|O01422|CSN2_CAEEL COP9 signalosome complex subunit 2 (Signalosome subunit 2) 0.0
blast CAE74372 Hypothetical protein CBG22097 [Caenorhabditis briggsae] 0.0
blast AAH71025 LOC432342 protein [Xenopus laevis] sp|Q6IR75|CSN2_XENLA COP9 signalosome complex subunit 2 (Signalosome subunit 2) 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR000717 EMBL-EBI Proteasome component region PCI 7.8E-33
Sequence
Target Sequence 
>C. ELEGANS:187777_AT
cggaaaactcttctttgacttgcacgagttcacaaaattggagaaaatcgttaagcagct
caaggtttcgtgtaaaaatgaacaaggagaagaggatcaacgaaaaggaacacaacttct
cgagatttatgctttggaaattcaaatgtacaccgaacagaagaacaataaggcattgaa
atgggtttacgagttggcgacacaggctattcatacaaaatctgctattcctcatccatt
gattctgggaactattcgtgtctatttgagcaaaaaactcaagttacaccatcttgaaaa
tttgaaaaaagctgaaattcagaattgggaaaaatgtttattaaagacaaggtggatatg
ttcaattgtgttgtgtctgtctgtgtgtcccaagatcaatccggattctctgggaacgag
cttccaggactcgcacaacgtttgcaatttagctgctgagctgaatctggcgtgtttcca
gagtctaagccgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGAAAACTCTTCTTTGACTTGCAC 702 241 468 Antisense
TAAGCAGCTCAAGGTTTCGTGTAAA 530 637 519 Antisense
GTTGGCGACACAGGCTATTCATACA 514 435 660 Antisense
TACAAAATCTGCTATTCCTCATCCA 193 643 681 Antisense
GGGAACTATTCGTGTCTATTTGAGC 223 495 714 Antisense
AATTGTGTTGTGTCTGTCTGTGTGT 538 179 831 Antisense
TCTGTGTGTCCCAAGATCAATCCGG 393 607 847 Antisense
CCGGATTCTCTGGGAACGAGCTTCC 459 263 868 Antisense
TTCCAGGACTCGCACAACGTTTGCA 101 695 889 Antisense
GCTGAGCTGAATCTGGCGTGTTTCC 172 297 922 Antisense
GCGTGTTTCCAGAGTCTAAGCCGAA 166 291 937 Antisense
Sequence Source Affymetrix Proprietary Database