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[188498_s_at]

Description F25B5.4 /REP_DB=WormBase Gene ID /WP=CE01921 /GEN=ubq-1 /TR=SW:P14792 /GB=AAC46525.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 53      6grp_high1_10_10 > 34      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 29      6grp_total > 01      4grp_total > 01      6grp_highest_sub > 02      6grp_cgc > 54      6grp_high1_sub > 02      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12737
1 2 3 4 range
A 15297.6
(-1.5)
P 		12429.2
(-3)
P 		15205
(-1.5)
P 		23679
(3)
P 		11250
B 14301.2
(-3)
P 		14788.7
(-2.6)
P 		15761.7
(-1.8)
P 		21554.5
(3)
P 		7253
C 12886.3
(-3)
P 		13419.7
(-2.7)
P 		13466.6
(-2.7)
P 		25165.9
(3)
P 		12280
avr 14161.7
(-2.6) 		13545.9
(-3) 		14811.1
(-2.2) 		23466.5
(3) 		9921

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6949
1 2 3 4 5 6 range
A 11571.5
(-1.9)
P 		15913.9
(3)
P 		10548.1
(-3)
P 		12392.6
(-0.9)
P 		12602.9
(-0.7)
P 		14759.2
(1.7)
P 		5366
B 11576.8
(-0.1)
P 		12819.4
(3)
P 		10446.9
(-2.9)
P 		12128.5
(1.3)
P 		10396.5
(-3)
P 		10874.2
(-1.8)
P 		2423
C 13093.4
(0.9)
P 		12356.1
(0.2)
P 		15357.2
(3)
P 		8965.2
(-3)
P 		14397.9
(2.1)
P 		11135.9
(-1)
P 		6392
avr 12080.6
(-0.8) 		13696.5
(3) 		12117.4
(-0.7) 		11162.1
(-3) 		12465.8
(0.1) 		12256.4
(-0.4) 		2534
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2872
1 2 3 4 range
A 5569.9
(3)
P 		2698
(-3)
P 		3974.9
(-0.3)
P 		3466.1
(-1.4)
P 		2872
B 4560.5
(2.8)
P 		3652.5
(-3)
P 		3652.3
(-3)
P 		4593.3
(3)
P 		941
C 4265.7
(-0.1)
P 		3858.2
(-3)
P 		4693.5
(3)
P 		4243.4
(-0.2)
P 		835
avr 4798.7
(3) 		3402.9
(-3) 		4106.9
(0) 		4100.9
(0) 		1396

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3857
1 2 3 4 5 6 range
A 2133.1
(-3)
P 		5659.8
(3)
P 		2297.2
(-2.7)
P 		3143
(-1.3)
P 		3803
(-0.2)
P 		3593.4
(-0.5)
P 		3527
B 4028.2
(2.2)
P 		4267
(3)
P 		2536.8
(-3)
P 		3212.4
(-0.7)
P 		4224
(2.9)
P 		4055
(2.3)
P 		1730
C 4853.2
(3)
P 		3770.2
(0.9)
P 		3908.7
(1.1)
P 		1802.9
(-3)
P 		4659
(2.6)
P 		3727.8
(0.8)
P 		3050
avr 3671.5
(0.1) 		4565.7
(3) 		2914.2
(-2.4) 		2719.4
(-3) 		4228.7
(1.9) 		3792.1
(0.5) 		1846
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188498_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6428
Sequence Type Exemplar sequence
Representative Public ID F25B5.4 NCBI
Target Description F25B5.4 /REP_DB=WormBase Gene ID /WP=CE01921 /GEN=ubq-1 /TR=SW:P14792 /GB=AAC46525.1 /SUBMIT=ST.LOUIS /CHR=3 /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_171139(11), NM_171868(9)
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 
NM_171868 NCBI Caenorhabditis elegans UBiQuitin family member (ubq-1) (ubq-1) mRNA, complete cds. 9/11 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 
F25B5.4c ENSEMBL cdna:known chromosome:CEL140:III:5940938:5943489:1 gene:F25B5.4 9/11 A 
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
chrIII:5940936-5943654(+) 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
blast NP_741158 UBiQuitin family member (ubq-1) [Caenorhabditis elegans] gb|AAM22069.2| Ubiquitin protein 1, isoform c [Caenorhabditis elegans] 0.0
blast XP_880223 PREDICTED: similar to ubiquitin C isoform 18 [Bos taurus] 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
Pfam IPR000626 EMBL-EBI Ubiquitin 1.7E-24
Sequence
Target Sequence 
>C. ELEGANS:188498_S_AT
agatcagcagagactcatcttcgccggaaaacaactcgaagacggtcgtaccctctccga
ctacaacatccaaaaggagtctactcttcatttggttctccgtctgagaggaggtatgca
gatcttcgtcaagacattgaccggaaagaccatcaccctcgaagtcgaagcctccgacac
catcgaaaatgtcaaggccaagatccaagacaaggaaggaattccaccagatcagcagag
acttattttcgctggaaagcaactcgaggatggccgtaccctttcggactacaatatcca
gaaggagtctactcttcatttggtgctccgtctcagaggaggtatgcagatcttcgtcaa
gactttgactggaaaaaccatcactctcgaggtcgaagcttcggacaccattgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATCAGCAGAGACTCATCTTCGCC 434 65 1950 Antisense
AGGAGTCTACTCTTCATTTGGTTCT 143 57 2024 Antisense
AGGAGGTATGCAGATCTTCGTCAAG 280 57 2058 Antisense
CATTGACCGGAAAGACCATCACCCT 683 215 2084 Antisense
AAGCCTCCGACACCATCGAAAATGT 657 147 2117 Antisense
GTACCCTTTCGGACTACAATATCCA 520 455 2225 Antisense
GAGTCTACTCTTCATTTGGTGCTCC 52 401 2254 Antisense
TTTGGTGCTCCGTCTCAGAGGAGGT 560 665 2268 Antisense
GAGGAGGTATGCAGATCTTCGTCAA 28 405 2285 Antisense
GAAAAACCATCACTCTCGAGGTCGA 421 355 2321 Antisense
GGTCGAAGCTTCGGACACCATTGAG 3 501 2340 Antisense
Sequence Source Affymetrix Proprietary Database