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[173146_s_at] Yeast NIP80 protein like

Description AV181792_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181792 /DEF=Caenorhabditis elegans cDNA clone:yk624h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 73      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 46      6grp_total > 61      4grp_total > 57      6grp_highest_sub > 03_04      6grp_cgc > 76      6grp_high1_sub > 03_04      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2825
1 2 3 4 range
A 2481.4
(-3)
P 		4415.5
(1.4)
P 		5147.4
(3)
P 		2649
(-2.6)
P 		2666
B 2645.9
(-2.7)
P 		3793.9
(0.9)
P 		4458.2
(3)
P 		2555.1
(-3)
P 		1903
C 2894.9
(-1.1)
P 		3629.7
(1.3)
P 		4138.2
(3)
P 		2322.2
(-3)
P 		1816
avr 2674.1
(-2.5) 		3946.4
(1.2) 		4581.3
(3) 		2508.8
(-3) 		2073

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1145
1 2 3 4 5 6 range
A 3129.9
(1.3)
P 		3109.5
(1.2)
P 		3156.2
(1.5)
P 		3347.6
(3)
P 		2561.1
(-3)
P 		3129.8
(1.3)
P 		787
B 2442
(-3)
P 		2597.2
(-2.2)
P 		3266.2
(1.3)
P 		3587.3
(3)
P 		3256.4
(1.3)
P 		3010.1
(-0)
P 		1145
C 2538.7
(-3)
P 		2638.8
(-2.4)
P 		3523.2
(3)
P 		3184
(0.9)
P 		2878.6
(-0.9)
P 		2827.2
(-1.2)
P 		985
avr 2703.5
(-3) 		2781.8
(-2.3) 		3315.2
(2.5) 		3373
(3) 		2898.7
(-1.3) 		2989
(-0.4) 		670
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1055
1 2 3 4 range
A 903.5
(0.2)
P 		958.5
(0.6)
P 		1345.6
(3)
P 		387.8
(-3)
P 		958
B 843.8
(0.7)
P 		937
(1.8)
P 		1033.1
(3)
P 		544.5
(-3)
P 		489
C 958.3
(0.2)
P 		1043.5
(0.7)
P 		1442.3
(3)
P 		391.6
(-3)
P 		1051
avr 901.9
(0.3) 		979.7
(0.9) 		1273.7
(3) 		441.3
(-3) 		832

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 746
1 2 3 4 5 6 range
A 577
(-3)
P 		1105.9
(3)
P 		687.4
(-1.7)
P 		849
(0.1)
P 		772.8
(-0.8)
P 		762
(-0.9)
P 		529
B 849.7
(-2.4)
P 		864.5
(-2.2)
P 		793.1
(-3)
P 		950.1
(-1.2)
P 		1323
(3)
P 		1122.4
(0.7)
P 		530
C 941
(2.9)
P 		805.2
(0.2)
P 		896.7
(2)
P 		640.3
(-3)
P 		931.5
(2.7)
P 		946.4
(3)
P 		306
avr 789.2
(-3) 		925.2
(0.7) 		792.4
(-2.9) 		813.1
(-2.3) 		1009.1
(3) 		943.6
(1.2) 		220
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173146_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26767
Sequence Type Exemplar sequence
Representative Public ID AV181792 NCBI
Target Description AV181792_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181792 /DEF=Caenorhabditis elegans cDNA clone:yk624h2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_059953(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059953 NCBI Caenorhabditis elegans Proteasome Beta Subunit family member (pbs-7) (pbs-7) mRNA, complete cds. 11/11 A 
SNAP00000035949 ENSEMBL cdna:SNAP chromosome:CEL140:I:8703488:8704417:-1 11/11 None
GENEFINDER00000035959 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8703488:8704417:-1 11/11 None
F39H11.5.2 ENSEMBL cdna:known chromosome:CEL140:I:8703331:8704426:-1 gene:F39H11.5 11/11 None
F39H11.5.1 ENSEMBL cdna:known chromosome:CEL140:I:8703331:8704417:-1 gene:F39H11.5 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
chrI:8703354-8703617(-) 87.67 87.67
Public Domain and Genome References
Gene Title Yeast NIP80 protein like
Gene Symbol pbs-7
Ensembl F39H11.5
Entrez Gene 172674 Entrez gene
SwissProt P90868 EMBL-EBI
WormBase CE20761 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6511 ubiquitin-dependent protein catabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5839 proteasome core complex (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4175 endopeptidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03081 Hypothetical protein F39H11.5 [Caenorhabditis elegans] ref|NP_492354.1| Proteasome Beta Subunit family member (pbs-7) [Caenorhabditis elegans] 1.0E-129
blast CAE66951 Hypothetical protein CBG12343 [Caenorhabditis briggsae] 1.0E-101
Protein Domains
Database ID Description E-Value
Pfam IPR001353 EMBL-EBI Peptidase T1, 20S proteasome 6.1E-19
Sequence
Target Sequence 
>C. ELEGANS:173146_S_AT
gagaagacctctcccgtgaagaggcagaagccgtgcttcgcaaatcgcttgaacttactc
tctaccacgactgcgtcgctgacaatgagttcgaaatcggacgtgttgatgcgacagaag
gtgtcgttttgggtaaagaagagaagattattggtgactggtcgattgccgagactaact
gtcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAAGACCTCTCCCGTGAAGAGGC 385 391 18 Antisense
GAAGAGGCAGAAGCCGTGCTTCGCA 253 339 35 Antisense
CGTGCTTCGCAAATCGCTTGAACTT 40 245 49 Antisense
AAATCGCTTGAACTTACTCTCTACC 422 117 59 Antisense
ACCACGACTGCGTCGCTGACAATGA 670 85 81 Antisense
ACTGCGTCGCTGACAATGAGTTCGA 269 99 87 Antisense
ATGAGTTCGAAATCGGACGTGTTGA 187 43 102 Antisense
GGACGTGTTGATGCGACAGAAGGTG 153 525 116 Antisense
GAAGATTATTGGTGACTGGTCGATT 603 337 160 Antisense
GGTGACTGGTCGATTGCCGAGACTA 115 501 170 Antisense
GTCGATTGCCGAGACTAACTGTCAA 68 473 178 Antisense
Sequence Source Affymetrix Proprietary Database