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[182238_s_at]

Description Y59A8A.1 /REP_DB=WormBase Gene ID /WP=CE26200 /TR=Q9GS00 /GB=CAC14399.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 85      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 83      6grp_total > 65      4grp_total > 62      6grp_cgc > 57      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 312
1 2 3 4 range
A 505.2
(3)
P 		422.7
(0.8)
P 		395.1
(0.1)
P 		277.6
(-3)
P 		228
B 508.8
(3)
P 		419.4
(0.5)
P 		426.7
(0.7)
P 		290.7
(-3)
P 		218
C 589.2
(3)
P 		409.1
(-0.9)
P 		456.5
(0.1)
P 		310.6
(-3)
P 		279
avr 534.4
(3) 		417.1
(0.1) 		426.1
(0.3) 		293
(-3) 		241

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 454
1 2 3 4 5 6 range
A 247.6
(-3)
P 		457.5
(1.1)
P 		553
(3)
P 		496
(1.9)
P 		533.7
(2.6)
P 		452.7
(1)
P 		305
B 505.1
(-1.6)
P 		466.2
(-2.8)
P 		653.6
(3)
P 		458.6
(-3)
P 		486.4
(-2.1)
P 		601.5
(1.4)
P 		195
C 441.5
(-2.2)
P 		477.1
(-1.5)
P 		402
(-3)
P 		409.8
(-2.8)
P 		496.7
(-1.1)
P 		702
(3)
P 		300
avr 398.1
(-3) 		466.9
(-0.8) 		536.2
(1.4) 		454.8
(-1.2) 		505.6
(0.4) 		585.4
(3) 		187
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 154
1 2 3 4 range
A 184
(3)
P 		91.7
(-0.9)
P 		103.3
(-0.4)
P 		40.6
(-3)
P 		143
B 162.3
(3)
P 		103.6
(-0.5)
P 		98.9
(-0.8)
P 		61.9
(-3)
P 		100
C 195
(3)
P 		117.6
(-0.3)
P 		159.1
(1.5)
P 		52.4
(-3)
P 		143
avr 180.4
(3) 		104.3
(-0.5) 		120.4
(0.2) 		51.6
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 45.6
(-3)
P 		162.7
(3)
P 		120.4
(0.8)
P 		125.8
(1.1)
P 		161.1
(2.9)
P 		110.2
(0.3)
P 		117
B 175.7
(0.2)
P 		155.2
(-1)
P 		158.7
(-0.8)
P 		121.5
(-3)
P 		197.6
(1.4)
P 		224.3
(3)
P 		103
C 163.6
(0.2)
P 		145.6
(-0.5)
P 		102.3
(-2.2)
P 		82.4
(-3)
P 		160.7
(0.1)
P 		235
(3)
P 		153
avr 128.3
(-1.6) 		154.5
(0.3) 		127.1
(-1.7) 		109.9
(-3) 		173.1
(1.7) 		189.8
(3) 		80
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182238_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14755
Sequence Type Exemplar sequence
Representative Public ID Y59A8A.1 NCBI
Target Description Y59A8A.1 /REP_DB=WormBase Gene ID /WP=CE26200 /TR=Q9GS00 /GB=CAC14399.1 /SUBMIT=HINXTON /CHR=5 /FEA=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_075106(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075106 NCBI Caenorhabditis elegans COP-9 SigNalosome subunit family member (csn-1) (csn-1) mRNA, complete cds. 11/11 None
GENEFINDER00000001061 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17864015:17869105:-1 11/11 None
Y59A8A.1 ENSEMBL cdna:known chromosome:CEL140:V:17863961:17873227:-1 gene:Y59A8A.1 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
chrV:17864014-17873210(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol csn-1
Ensembl Y59A8A.1
Entrez Gene 180168 Entrez gene
SwissProt Q9GS00 EMBL-EBI
WormBase CE26200 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC14399 Hypothetical protein Y59A8A.1 [Caenorhabditis elegans] ref|NP_507507.1| COP-9 SigNalosome subunit family member (csn-1) [Caenorhabditis elegans] sp|Q9GS00|CSN1_CAEEL COP9 signalosome complex subunit 1 (Signalosome subunit 1) 0.0
blast CAE61706 Hypothetical protein CBG05655 [Caenorhabditis briggsae] 0.0
blast CAE61706 Hypothetical protein CBG05655 [Caenorhabditis briggsae] 1.0E-114
blast BAE01412.1 unnamed protein product [Macaca fascicularis] 2.0E-43
blast AAG17476 rCOP11 protein [Oryza sativa] 7.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR000717 EMBL-EBI Proteasome component region PCI 3.6E-29
Pfam IPR000717 EMBL-EBI Proteasome component region PCI 3.6E-29
Sequence
Target Sequence 
>C. ELEGANS:182238_S_AT
agctcattgagcttctcggatcgtatacatcaagccgattcggtcgatgctttgagatta
tgagatcggtgaagcctcggcttcttctcgatccatttatctctagaaatgtcgatgaac
ttttcgagaaaattcggcagaaatgtgttctccaataccttcaaccgtattctacgatta
aaatggcaacgatggctgaagctgttggaatgagctcggcggaacttcagttatcgctgt
tagagctcattgagcagaagcatgtctcgttgaaaattgatcaaaacgagggaattgtga
ggattttggatgaacgggatgagaatgctattttgaaaagagtaaacgtcacttgtgatc
gggcaactcaaaaagccaaatcacttttatggaaaactacacttgccggagcaaatattc
actcaatttccgacaaagaaacccgtccaaaacgtaaaaatcaaaaggaatcggcgaaat
tcgatcggaattttggtggaattgatgtggatgaagatccgagaggaattgctggaccat
ctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCATTGAGCTTCTCGGATCGTA 423 79 1193 Antisense
CGTATACATCAAGCCGATTCGGTCG 248 245 1214 Antisense
GATTCGGTCGATGCTTTGAGATTAT 175 433 1229 Antisense
TCGGTGAAGCCTCGGCTTCTTCTCG 302 605 1258 Antisense
TTCTTCTCGATCCATTTATCTCTAG 200 691 1274 Antisense
GTTCTCCAATACCTTCAACCGTATT 465 439 1339 Antisense
GAATGAGCTCGGCGGAACTTCAGTT 693 331 1400 Antisense
GTCACTTGTGATCGGGCAACTCAAA 530 465 1540 Antisense
TGGAAAACTACACTTGCCGGAGCAA 131 547 1582 Antisense
AATATTCACTCAATTTCCGACAAAG 599 173 1606 Antisense
CCGAGAGGAATTGCTGGACCATCTG 300 263 1711 Antisense
Sequence Source Affymetrix Proprietary Database