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[192689_s_at] Yeast NIP80 protein like

Description F39H11.5 /REP_DB=WormBase Gene ID /WP=CE20761 /GEN=pbs-7 /TR=P90868 /GB=CAB03081.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Yeast NIP80 protein like
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 82      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 46      6grp_total > 73      4grp_total > 48      6grp_highest_sub > 04      6grp_cgc > 76      6grp_high1_sub > 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 2052
1 2 3 4 range
A 2509.5
(-2.3)
P 		3468.7
(0.6)
P 		4278.4
(3)
P 		2257.9
(-3)
P 		2021
B 2374.6
(-3)
P 		3509.3
(0.5)
P 		4309.7
(3)
P 		2528.1
(-2.5)
P 		1935
C 2366.9
(-2.6)
P 		3174.8
(0.1)
P 		4044.1
(3)
P 		2258.5
(-3)
P 		1786
avr 2417
(-2.8) 		3384.3
(0.3) 		4210.7
(3) 		2348.2
(-3) 		1863

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1248
1 2 3 4 5 6 range
A 3023
(-1.2)
P 		2678.6
(-3)
P 		3235.1
(-0)
P 		3803
(3)
P 		3032.1
(-1.1)
P 		2762
(-2.6)
P 		1124
B 2808.3
(-1.3)
P 		2555.2
(-3)
P 		3191.3
(1.3)
P 		2990.1
(-0.1)
P 		3447.7
(3)
P 		3035
(0.2)
P 		893
C 2738.4
(-2.4)
P 		2658.6
(-3)
P 		3414.8
(3)
P 		3135.6
(0.8)
P 		3066.4
(0.2)
P 		3005.6
(-0.2)
P 		756
avr 2856.6
(-1) 		2630.8
(-3) 		3280.4
(2.7) 		3309.6
(3) 		3182.1
(1.9) 		2934.2
(-0.3) 		679
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1079
1 2 3 4 range
A 913.7
(1.4)
P 		753
(0.2)
P 		1118.5
(3)
P 		330.5
(-3)
P 		788
B 757.2
(-0.2)
P 		866.7
(1.3)
P 		998.7
(3)
P 		538.7
(-3)
P 		460
C 783.5
(-0.7)
P 		912.8
(0.1)
P 		1409.5
(3)
P 		380.8
(-3)
P 		1029
avr 818.1
(0.2) 		844.2
(0.4) 		1175.6
(3) 		416.7
(-3) 		759

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 844
1 2 3 4 5 6 range
A 557.3
(-3)
P 		952.6
(2.8)
P 		704.5
(-0.8)
P 		964.5
(3)
P 		915
(2.3)
P 		672.4
(-1.3)
P 		407
B 977.2
(-1.1)
P 		850.5
(-2.3)
P 		774.9
(-3)
P 		792
(-2.8)
P 		1400.8
(3)
P 		1131.8
(0.4)
P 		626
C 1015
(3)
P 		811.2
(-0.2)
P 		869.1
(0.7)
P 		630.6
(-3)
P 		992.2
(2.6)
P 		1006.1
(2.9)
P 		384
avr 849.8
(-1.7) 		871.4
(-1.3) 		782.8
(-3) 		795.7
(-2.8) 		1102.7
(3) 		936.8
(-0.1) 		320
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192689_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.548
Sequence Type Exemplar sequence
Representative Public ID F39H11.5 NCBI
Target Description F39H11.5 /REP_DB=WormBase Gene ID /WP=CE20761 /GEN=pbs-7 /TR=P90868 /GB=CAB03081.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Yeast NIP80 protein like
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_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:8703418-8704348(-) 100.0 100.0
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:192689_S_AT
gttgttgtccttactgatcgagttgtttcctatggaaaaatggctcgttacaagaatgtt
tctcgtcaatacaaggtcaatgataatgttctcattgccttcggaggagatcacgctgac
ttccactggcttcaaaatgtgatcgagcgtcaggttcttctctggaagcgcttcgatcag
gatattggaccaaaagctctccacggatacctcacaagccttctctacgccaaacgttgc
aagatgaacccagtgtggaacacacttgttgtcgccggagtcgaagaggaggagaagaac
aacaaggagactagcacacctttcatcggtgtcattactcagaagggatgcgcatatcaa
gtgaagcacattgcaactggacttggagcgttcctcctcaaccaagctgttgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGTTGTCCTTACTGATCGAGTTG 504 437 97 Antisense
GATAATGTTCTCATTGCCTTCGGAG 122 423 178 Antisense
TGCCTTCGGAGGAGATCACGCTGAC 413 585 192 Antisense
TGTGATCGAGCGTCAGGTTCTTCTC 136 557 234 Antisense
GTTCTTCTCTGGAAGCGCTTCGATC 118 443 250 Antisense
TGGACCAAAAGCTCTCCACGGATAC 273 547 282 Antisense
TGTGGAACACACTTGTTGTCGCCGG 476 555 350 Antisense
AAGGAGACTAGCACACCTTTCATCG 344 161 400 Antisense
CCTTTCATCGGTGTCATTACTCAGA 524 269 415 Antisense
TGCAACTGGACTTGGAGCGTTCCTC 458 577 468 Antisense
GTTCCTCCTCAACCAAGCTGTTGAA 560 441 486 Antisense
Sequence Source Affymetrix Proprietary Database