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[188728_at]

Description H06I04.4 /REP_DB=WormBase Gene ID /WP=CE20938 /TR=Q9N5P1 /GB=AAF39865.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ubiquitin
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 09      6grp_total > 42      4grp_total > 25      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12016
1 2 3 4 range
A 26950.1
(-3)
P 		33519.9
(0.3)
P 		32449.2
(-0.3)
P 		38966.3
(3)
P 		12016
B 27949.5
(-3)
P 		32514.7
(0.7)
P 		35346.3
(3)
P 		33172.9
(1.2)
P 		7397
C 27319.5
(-3)
P 		31183
(0.3)
P 		27407.6
(-2.9)
P 		34287.3
(3)
P 		6968
avr 27406.4
(-3) 		32405.9
(0.7) 		31734.4
(0.2) 		35475.5
(3) 		8069

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9833
1 2 3 4 5 6 range
A 25320.5
(3)
P 		22891.5
(0.8)
P 		24099.3
(1.9)
P 		23614.2
(1.5)
P 		18559.3
(-3)
P 		21512
(-0.4)
P 		6761
B 22680.4
(0.2)
P 		20614.7
(-1)
P 		27230.1
(3)
P 		20408.9
(-1.2)
P 		17893.8
(-2.7)
P 		17397.4
(-3)
P 		9833
C 21973.7
(-0.1)
P 		20961.9
(-1.1)
P 		24980.7
(3)
P 		23498.5
(1.5)
P 		22699
(0.7)
P 		19087.3
(-3)
P 		5893
avr 23324.9
(0.9) 		21489.4
(-0.9) 		25436.7
(3) 		22507.2
(0.1) 		19717.4
(-2.6) 		19332.2
(-3) 		6105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4109
1 2 3 4 range
A 9812.5
(3)
P 		7276.3
(-0.7)
P 		8482.9
(1.1)
P 		5703.9
(-3)
P 		4109
B 8912.9
(3)
P 		8030.4
(0.1)
P 		8190.6
(0.6)
P 		7069.2
(-3)
P 		1844
C 9043.5
(2.2)
P 		8965.3
(2.1)
P 		9552.4
(3)
P 		5781.4
(-3)
P 		3771
avr 9256.3
(3) 		8090.7
(0.7) 		8742
(2) 		6184.8
(-3) 		3072

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3477
1 2 3 4 5 6 range
A 4667.6
(-3)
P 		8141.3
(3)
P 		5248.3
(-2)
P 		5989.1
(-0.7)
P 		5600.4
(-1.4)
P 		5237.5
(-2)
P 		3474
B 7891.7
(3)
P 		6861.8
(0.5)
P 		6612.3
(-0.1)
P 		5405.6
(-3)
P 		7270
(1.5)
P 		6487.4
(-0.4)
P 		2486
C 8144.7
(3)
P 		6396.1
(-0.1)
P 		6358
(-0.1)
P 		4725.6
(-3)
P 		7345.1
(1.6)
P 		6389.6
(-0.1)
P 		3419
avr 6901.3
(2.2) 		7133.1
(3) 		6072.9
(-0.6) 		5373.4
(-3) 		6738.5
(1.7) 		6038.2
(-0.7) 		1760
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188728_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6557
Sequence Type Exemplar sequence
Representative Public ID H06I04.4 NCBI
Target Description H06I04.4 /REP_DB=WormBase Gene ID /WP=CE20938 /TR=Q9N5P1 /GB=AAF39865.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ubiquitin
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_171089(11), NM_001027466(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171089 NCBI Caenorhabditis elegans H06I04.4a (ubiquitin) mRNA, complete cds. 11/11 None
NM_001027466 NCBI Caenorhabditis elegans H06I04.4b (ubiquitin) mRNA, complete cds. 10/11 None
SNAP00000025110 ENSEMBL cdna:SNAP chromosome:CEL140:III:3068325:3069151:1 11/11 None
GENEFINDER00000025125 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3068325:3069151:1 11/11 None
H06I04.4a.3 ENSEMBL cdna:known chromosome:CEL140:III:3068234:3069189:1 gene:H06I04.4 11/11 None
H06I04.4a.2 ENSEMBL cdna:known chromosome:CEL140:III:3068296:3069336:1 gene:H06I04.4 11/11 None
H06I04.4b.1 ENSEMBL cdna:known chromosome:CEL140:III:3068300:3069190:1 gene:H06I04.4 10/11 None
H06I04.4a.1 ENSEMBL cdna:known chromosome:CEL140:III:3068307:3069211:1 gene:H06I04.4 11/11 None
H06I04.4b.2 ENSEMBL cdna:known chromosome:CEL140:III:3068307:3069200:1 gene:H06I04.4 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
chrIII:3068324-3069151(+) 100.0 100.0
Public Domain and Genome References
Ensembl H06I04.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39865 Ubiquitin-like family protein 1, isoform a [Caenorhabditis elegans] ref|NP_741102.1| H06I04.4a [Caenorhabditis elegans] pir||A48766 ubiquitin / ribosomal protein S27a - Caenorhabditis elegans gb|AAA28161.1| ubiquitin-like:ribosomal protein fusion protein 2.0E-58
blast B48766 ubiquitin-like protein / ribosomal protein (UbL) - Caenorhabditis briggsae gb|AAA28160.1| ubiquitin-like:ribosomal protein fusion protein 6.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR002906 EMBL-EBI Ribosomal protein S27a 1.7E-31
Pfam IPR000626 EMBL-EBI Ubiquitin 5.0E-18
Pfam IPR000626 EMBL-EBI Ubiquitin 4.9E-11
Sequence
Target Sequence 
>C. ELEGANS:188728_AT
tccacagaaccttgttcctcgaggtcgccgccaacgaggatgtcttgagcatcaagcaaa
aaatcgaggccgccgagggaattccagccgaagagcagagactctgctacgccggacgtc
agctcgaggatagcgattgcggaatcgactctgaggccaccatctacgtcaaccttgagc
ttctcggaggagccaagaagagaaagaagaaggtctacaccaccccaaagaagaacaaga
gaaagccaaagaaggtcaagctcgccgtccttaagtactacaagatcgacgagaacggca
agatcacccgtcttcgcaaggagtgccaacaaccatcatgcggaggaggagtcttcatgg
ctcaacacgccaacagacactactgcggaagatgccacgacacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCACAGAACCTTGTTCCTCGAGGT 634 587 32 Antisense
GCCGCCAACGAGGATGTCTTGAGCA 542 285 58 Antisense
AATCGAGGCCGCCGAGGGAATTCCA 638 165 93 Antisense
CCGGACGTCAGCTCGAGGATAGCGA 663 263 143 Antisense
GCCAAAGAAGGTCAAGCTCGCCGTC 250 275 276 Antisense
CTCGCCGTCCTTAAGTACTACAAGA 8 211 292 Antisense
CCGTCTTCGCAAGGAGTGCCAACAA 426 265 339 Antisense
GTGCCAACAACCATCATGCGGAGGA 445 477 354 Antisense
AGGAGTCTTCATGGCTCAACACGCC 122 55 378 Antisense
AACACGCCAACAGACACTACTGCGG 648 135 395 Antisense
CTACTGCGGAAGATGCCACGACACC 415 225 411 Antisense
Sequence Source Affymetrix Proprietary Database