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[174373_s_at]

Description C55576_rc /REP_DB=TREMBL Accession /GB=C55576 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk205g5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 29      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 38      6grp_total > 28      4grp_total > 17      6grp_highest_sub > Cu      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9716
1 2 3 4 range
A 6071.2
(-3)
P 		7592
(-1.8)
P 		8120.2
(-1.4)
P 		13903.3
(3)
P 		7832
B 6196
(-3)
P 		8594.2
(-1.5)
P 		7054.5
(-2.5)
P 		15787.2
(3)
P 		9591
C 7419.7
(-3)
P 		8805.5
(-1.7)
P 		9531.2
(-1)
P 		13755.1
(3)
P 		6335
avr 6562.3
(-3) 		8330.6
(-1.7) 		8235.3
(-1.7) 		14481.9
(3) 		7920

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3136
1 2 3 4 5 6 range
A 7109.5
(3)
P 		6631.4
(1.1)
P 		5634.5
(-3)
P 		6149.4
(-0.9)
P 		5752.8
(-2.5)
P 		6371
(-0)
P 		1475
B 7896
(3)
P 		6511.3
(0)
P 		5161.7
(-2.9)
P 		5103.5
(-3)
P 		5660.7
(-1.8)
P 		6600.6
(0.2)
P 		2793
C 7217.6
(3)
P 		6157
(0.4)
P 		5970.5
(-0)
P 		4759.9
(-3)
P 		7043.7
(2.6)
P 		6278.9
(0.7)
P 		2458
avr 7407.7
(3) 		6433.2
(0.2) 		5588.9
(-2.3) 		5337.6
(-3) 		6152.4
(-0.6) 		6416.8
(0.1) 		2070
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1730
1 2 3 4 range
A 2210.5
(3)
P 		1648
(-3)
P 		2122.8
(2.1)
P 		2035.2
(1.1)
P 		563
B 1975.9
(-1.8)
P 		2122.6
(-1.3)
P 		1634.7
(-3)
P 		3364.3
(3)
P 		1730
C 2456.1
(-2.2)
P 		2531.6
(-1.7)
P 		3321.9
(3)
P 		2319.3
(-3)
P 		1003
avr 2214.2
(-1.6) 		2100.7
(-3) 		2359.8
(0.3) 		2572.9
(3) 		472

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1790
1 2 3 4 5 6 range
A 1310.6
(-2.6)
P 		2358.5
(3)
P 		1227.1
(-3)
P 		1559.6
(-1.2)
P 		1735.9
(-0.3)
P 		1551.1
(-1.3)
P 		1131
B 2747.4
(3)
P 		2167.3
(0.7)
P 		1253.4
(-3)
P 		1351.7
(-2.6)
P 		2299.9
(1.2)
P 		2461.3
(1.9)
P 		1494
C 2675.2
(3)
P 		1878.7
(0.2)
P 		1519.6
(-1)
P 		957.2
(-3)
P 		2279.2
(1.6)
P 		2101.9
(1)
P 		1718
avr 2244.4
(3) 		2134.8
(2.3) 		1333.4
(-2.7) 		1289.5
(-3) 		2105
(2.1) 		2038.1
(1.7) 		955
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174373_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20901
Sequence Type Exemplar sequence
Representative Public ID C55576 NCBI
Target Description C55576_rc /REP_DB=TREMBL Accession /GB=C55576 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk205g5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_171139(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171139 NCBI Caenorhabditis elegans UBiQuitin family member (ubq-1) (ubq-1) mRNA, complete cds. 11/11 A 
SNAP00000007782 ENSEMBL cdna:SNAP chromosome:CEL140:III:5940938:5943655:1 11/11 None
GENEFINDER00000007789 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5940938:5943655:1 11/11 None
F25B5.4a.4 ENSEMBL cdna:known chromosome:CEL140:III:5940191:5943782:1 gene:F25B5.4 11/11 None
F25B5.4a.3 ENSEMBL cdna:known chromosome:CEL140:III:5940795:5943782:1 gene:F25B5.4 11/11 A 
F25B5.4a.2 ENSEMBL cdna:known chromosome:CEL140:III:5940933:5943782:1 gene:F25B5.4 11/11 A 
F25B5.4a.1 ENSEMBL cdna:known chromosome:CEL140:III:5940934:5943782:1 gene:F25B5.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171868 5/11 Cross Hyb Matching Probes A 
F25B5.4c 5/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175840 2 1 NM_171139 174373_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5940945-5943705(+) 100.0 100.0
Public Domain and Genome References
Ensembl F25B5.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_741157 UBiQuitin family member (ubq-1) [Caenorhabditis elegans] gb|AAC46525.1| Ubiquitin protein 1, isoform a [Caenorhabditis elegans] pir||T16144 ubiquitin - Caenorhabditis elegans 0.0
blast AAA28154 polyubiquitin 0.0
blast BAA76676.1 polyubiquitin [Bombyx mori] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.1E-41
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Pfam IPR000626 EMBL-EBI Ubiquitin 1.3E-42
Sequence
Target Sequence 
>C. ELEGANS:174373_S_AT
gactggaaaaactatcaccctggaggtggaggcttccgataccatcgaaaatgtcaaagc
caagatccaagacaaggaaggaattccaccagatcagcaggaaagcagctcgaggatgga
cgcactctatccgattacaacatccaaaaggagtcgacacttcatctcgttcttcgtctt
cgcggaggagacatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTGGAAAAACTATCACCCTGGAG 642 375 27 Antisense
ACTATCACCCTGGAGGTGGAGGCTT 137 103 37 Antisense
GGCTTCCGATACCATCGAAAATGTC 691 537 57 Antisense
GATACCATCGAAAATGTCAAAGCCA 503 423 64 Antisense
GAAAGCAGCTCGAGGATGGACGCAC 583 359 127 Antisense
AGCTCGAGGATGGACGCACTCTATC 281 81 133 Antisense
AGGATGGACGCACTCTATCCGATTA 351 57 139 Antisense
GGACGCACTCTATCCGATTACAACA 443 521 144 Antisense
GCACTCTATCCGATTACAACATCCA 450 315 148 Antisense
TCTATCCGATTACAACATCCAAAAG 641 613 152 Antisense
TCTTCGTCTTCGCGGAGGAGACATT 190 615 197 Antisense
Sequence Source Affymetrix Proprietary Database