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[173384_at]

Description AU116510_rc /REP_DB=TREMBL Accession /GB=AU116510 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk745e7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 34      4grp_high_8_8 > 49      6grp_highest_nonorm > 96      6grp_total > 68      4grp_total > 62      6grp_highest_sub > Da      6grp_cgc > 39      6grp_high1_sub > Da      6grp_cgc_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 312
1 2 3 4 range
A 874.3
(3)
P 		782.7
(-1.2)
P 		744.3
(-3)
P 		800.2
(-0.4)
P 		130
B 834.3
(3)
P 		735.6
(-0.4)
P 		762
(0.5)
P 		659.8
(-3)
P 		175
C 892.2
(3)
P 		705.4
(-0.6)
P 		865.5
(2.5)
P 		580.5
(-3)
P 		312
avr 866.9
(3) 		741.2
(-1) 		790.6
(0.5) 		680.2
(-3) 		187

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 719
1 2 3 4 5 6 range
A 944.5
(-1)
P 		807.7
(-3)
P 		842.7
(-2.5)
P 		891.1
(-1.8)
P 		901.6
(-1.6)
P 		1208.6
(3)
P 		401
B 904.9
(-1)
P 		685.7
(-3)
P 		816.1
(-1.8)
P 		818.6
(-1.8)
P 		841.2
(-1.6)
P 		1334.4
(3)
P 		649
C 660.3
(-2.4)
P 		711.3
(-1.8)
P 		751.9
(-1.3)
P 		615.5
(-3)
P 		814.7
(-0.5)
P 		1103.2
(3)
P 		488
avr 836.6
(-1.7) 		734.9
(-3) 		803.6
(-2.1) 		775.1
(-2.5) 		852.5
(-1.5) 		1215.4
(3) 		481
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 220
1 2 3 4 range
A 318.3
(3)
P 		169.9
(-1.4)
P 		194.6
(-0.7)
P 		117.1
(-3)
P 		201
B 266
(3)
P 		181.7
(-1)
P 		176.6
(-1.3)
P 		140.6
(-3)
P 		125
C 295.3
(2.8)
P 		202.8
(0.1)
P 		301.7
(3)
P 		97.9
(-3)
P 		204
avr 293.2
(3) 		184.8
(-0.7) 		224.3
(0.6) 		118.5
(-3) 		175

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 374
1 2 3 4 5 6 range
A 174.1
(-3)
P 		287.2
(2.7)
P 		183.5
(-2.5)
P 		226
(-0.4)
P 		272.1
(1.9)
P 		294.2
(3)
P 		120
B 314.9
(-0.7)
P 		228.2
(-2.4)
P 		198.2
(-3)
P 		216.8
(-2.6)
P 		341.8
(-0.1)
P 		497.6
(3)
P 		299
C 244.8
(-0)
P 		217
(-0.7)
P 		191.4
(-1.3)
P 		123.8
(-3)
P 		263.6
(0.4)
P 		369.3
(3)
P 		246
avr 244.6
(-1.3) 		244.1
(-1.3) 		191
(-2.9) 		188.9
(-3) 		292.5
(0.1) 		387
(3) 		198
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173384_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27599
Sequence Type Exemplar sequence
Representative Public ID AU116510 NCBI
Target Description AU116510_rc /REP_DB=TREMBL Accession /GB=AU116510 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk745e7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_070156(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070156 NCBI Caenorhabditis elegans COP-9 SigNalosome subunit family member (csn-6) (csn-6) mRNA, complete cds. 10/11 None
SNAP00000010785 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13300799:13303499:1 10/11 None
GENEFINDER00000010801 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13300799:13303499:1 10/11 None
Y67H2A.6 ENSEMBL cdna:known chromosome:CEL140:IV:13300797:13303618:1 gene:Y67H2A.6 10/11 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
chrIV:13302649-13303608(+) 98.35 98.35
Public Domain and Genome References
Gene Title
Gene Symbol csn-6
Ensembl Y67H2A.6
Entrez Gene 178289 Entrez gene
SwissProt Q95PZ0 EMBL-EBI
WormBase CE28377 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248009_AT COP9 signalosome subunit 6 / CSN subunit 6 (CSN6A) at
CANINE:1583153_AT similar to COP9 signalosome subunit 6 cfa
CANINE_2:CFA.3201.1.A1_AT similar to COP9 signalosome subunit 6 cfa
CANINE_2:CFAAFFX.22816.1.S1_S_AT similar to COP9 signalosome subunit 6 cfa
DROSOPHILA_2:1636446_AT COP9 complex homolog subunit 6 dm
DROSGENOME1:144255_AT COP9 complex homolog subunit 6 dm
HG-U133_PLUS_2:213504_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U133A_2:213504_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U133A:213504_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U133_PLUS_2:201405_S_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U133A:201405_S_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-FOCUS:201405_S_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U133A_2:201405_S_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HU35KSUBA:RC_AA402787_S_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HUGENEFL:U70735_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
U133_X3P:G5803095_3P_A_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
U133_X3P:HS.15591.1.S1_3P_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
HG-U95AV2:40138_AT COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis) hs
MU11KSUBA:AA611425_S_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MG-U74AV2:99106_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOE430A:1451366_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOUSE430A_2:1451366_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOUSE430_2:1451366_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOE430A:1451367_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOUSE430A_2:1451367_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MOUSE430_2:1451367_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) mm
MU19KSUBA:TC15169_S_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana), mRNA (cDNA clone MGC:13818 IMAGE:4163277) mm
MU19KSUBA:TC15170_S_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana), mRNA (cDNA clone MGC:13818 IMAGE:4163277) mm
MU19KSUBC:TC41847_S_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana), mRNA (cDNA clone MGC:13818 IMAGE:4163277) mm
RG-U34C:RC_AI104231_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) (predicted) rn
RAE230A:1399011_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) (predicted) rn
RAT230_2:1399011_AT COP9 (constitutive photomorphogenic) homolog, subunit 6 (Arabidopsis thaliana) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAC44307 Hypothetical protein Y67H2A.6 [Caenorhabditis elegans] ref|NP_502557.1| COP-9 SigNalosome subunit family member (csn-6) [Caenorhabditis elegans] sp|Q95PZ0|CSN6_CAEEL COP9 signalosome complex subunit 6 (Signalosome subunit 6) 0.0
blast CAE58625 Hypothetical protein CBG01793 [Caenorhabditis briggsae] 0.0
blast AAF56022 CG6932-PA [Drosophila melanogaster] ref|NP_524451.1| CG6932-PA [Drosophila melanogaster] gb|AAL48078.1| RE71054p [Drosophila melanogaster] sp|Q9VCY3|CSN6_DROME COP9 signalosome complex subunit 6 (Signalosome subunit 6) (Dch6) 6.0E-33
Protein Domains
Database ID Description E-Value
Pfam IPR000555 EMBL-EBI Peptidase M67, Mov34 5.3E-9
Sequence
Target Sequence 
>C. ELEGANS:173384_AT
gaacaagttgtctgctcaaagagccgatcttctcgccgacgatggattccatggaaaatc
gacaagccgttgggctcatccggttcgattcaaatcncnacntctcggtcgtccgcanca
ggcatatgatgacgatttattttgatnatgaatatttggagancgatatgagtggaccac
ggagnnnnnttcatgctgctgattctccagctggatcgagaagacgacgtgttccgccaa
gagcaatgaacttcctcggtcggaattctggtatgcaagccgccacggacgaaatggaat
tgtcaggtcaagaggaaaatatgggaagcaactatattccagacgttccaagaccatctg
caacagcacacaacgagtcggacgagtcgagtcaagcttca

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACAAGTTGTCTGCTCAAAGAGCC 612 351 113 Antisense
TTCTCGCCGACGATGGATTCCATGG 550 693 142 Antisense
ATCGACAAGCCGTTGGGCTCATCCG 209 35 170 Antisense
TCATGCTGCTGATTCTCCAGCTGGA 240 623 303 Antisense
CGACGTGTTCCGCCAAGAGCAATGA 598 251 337 Antisense
GAACTTCCTCGGTCGGAATTCTGGT 302 351 360 Antisense
GGAATTCTGGTATGCAAGCCGCCAC 638 533 374 Antisense
GAAGCAACTATATTCCAGACGTTCC 463 341 437 Antisense
CGTTCCAAGACCATCTGCAACAGCA 105 247 456 Antisense
GCAACAGCACACAACGAGTCGGACG 532 319 472 Antisense
GTCGGACGAGTCGAGTCAAGCTTCA 213 473 489 Antisense
Sequence Source Affymetrix Proprietary Database