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[176842_at]

Description Y40G12A.1 /REP_DB=WormBase Gene ID /WP=CE20817 /GB=AAK71406.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 73      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 65      6grp_total > 64      4grp_total > 48      6grp_cgc > 93      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 541
1 2 3 4 range
A 971.6
(-3)
P 		1276.8
(3)
P 		1271.6
(2.9)
P 		1147.1
(0.5)
P 		305
B 923.2
(-3)
P 		1083.7
(-0.6)
P 		1324
(3)
P 		981.5
(-2.1)
P 		401
C 1077.2
(-1)
P 		1192.8
(0.2)
P 		1441
(3)
P 		900.2
(-3)
P 		541
avr 990.7
(-3) 		1184.4
(0.3) 		1345.5
(3) 		1009.6
(-2.7) 		355

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 510
1 2 3 4 5 6 range
A 1177.7
(0.8)
P 		937
(-3)
P 		1276.4
(2.3)
P 		1318.1
(3)
P 		998.7
(-2)
P 		1014.9
(-1.8)
P 		381
B 1024.4
(-2.1)
P 		1120.6
(-0.9)
P 		1434.4
(3)
P 		1182.9
(-0.2)
P 		955.8
(-3)
P 		1168.9
(-0.3)
P 		479
C 967
(-2.3)
P 		1100.1
(-0.1)
P 		1012.7
(-1.6)
P 		1271.6
(2.7)
P 		924.3
(-3)
P 		1292.6
(3)
P 		368
avr 1056.4
(-1.1) 		1052.6
(-1.1) 		1241.2
(2.7) 		1257.5
(3) 		959.6
(-3) 		1158.8
(1) 		298
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 350
1 2 3 4 range
A 353.8
(3)
P 		277.2
(0.5)
P 		332.4
(2.3)
P 		167.9
(-3)
P 		186
B 294.4
(2.2)
P 		267.6
(0.6)
P 		306.8
(3)
P 		209.2
(-3)
P 		98
C 356.6
(0.5)
P 		342.9
(0.3)
P 		502.2
(3)
P 		151.8
(-3)
P 		350
avr 334.9
(1.7) 		295.9
(0.5) 		380.5
(3) 		176.3
(-3) 		204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 217.1
(-3)
P 		333.2
(2.9)
P 		278
(0.1)
P 		334.3
(3)
P 		301.4
(1.3)
P 		247.1
(-1.5)
P 		117
B 356.4
(-0.9)
P 		373
(-0.1)
P 		348.3
(-1.3)
P 		313.3
(-3)
P 		388.3
(0.7)
P 		435.9
(3)
P 		123
C 358.4
(0.5)
P 		335.7
(-0.3)
P 		257.8
(-2.9)
P 		255.7
(-3)
P 		299.1
(-1.5)
P 		432.7
(3)
P 		177
avr 310.6
(-1.8) 		347.3
(1.1) 		294.7
(-3) 		301.1
(-2.5) 		329.6
(-0.3) 		371.9
(3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176842_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12246
Sequence Type Exemplar sequence
Representative Public ID Y40G12A.1 NCBI
Target Description Y40G12A.1 /REP_DB=WormBase Gene ID /WP=CE20817 /GB=AAK71406.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072252(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072252 NCBI Caenorhabditis elegans UBiquitin C-terminal Hydrolase (family 1) family member (ubh-3) (ubh-3) mRNA, complete cds. 11/11 None
Y40G12A.1 ENSEMBL cdna:known chromosome:CEL140:V:6509378:6511397:-1 gene:Y40G12A.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000002129 6/11 Cross Hyb Matching Probes None
GENEFINDER00000002138 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:6509486-6512404(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ubh-3
Ensembl Y40G12A.1
Entrez Gene 259626 Entrez gene
SwissProt Q965V9 EMBL-EBI
WormBase CE30001 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
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4221 ubiquitin thiolesterase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAM43789 Ubiquitin c-terminal hydrolase (family 1) protein 3 [Caenorhabditis elegans] ref|NP_504653.2| UBiquitin C-terminal Hydrolase (family 1) family member (ubh-3) [Caenorhabditis elegans] 1.0E-119
blast T33963 hypothetical protein F46E10.7 - Caenorhabditis elegans 1.0E-119
blast CAE71895 Hypothetical protein CBG18953 [Caenorhabditis briggsae] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR001578 EMBL-EBI Peptidase C12, ubiquitin carboxyl-terminal hydrolase family 1 1.5E-67
Sequence
Target Sequence 
>C. ELEGANS:176842_AT
gaatgtgtcgatgtctactcgttcgatgacgagatgctccaattcgttccaacaccacaa
cttgctctgattctgtgctttccaagcgcagaagcacgcgaatttctgtcgaaacaatat
gaggaagtggagaagaatggagaaaagccggaaggagtgttctttatgaatcaaagcgaa
gaaattggaaatgcttgtggaacatttgccttgtttcattcgttggcaaatcttgaaaat
cgtgtgaatcttggcaaaggaaagttcgcaaagtggtatgagaaggcgaaattggtcaat
gaagatgagcggtctgatttgttatctggagacactgatcttgcggaagcgcacgaagaa
accgccgaggaaggagaaactgaacaatcggatcacgttgattaccacttcatcacctat
gtcaacaagaatggacaactctacgaaatcgactcatgtgctccatttccacgtccactc
ggagccaccaccgactctacaatgatcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATGTGTCGATGTCTACTCGTTCG 172 333 832 Antisense
TCCAACACCACAACTTGCTCTGATT 95 589 879 Antisense
TGCTCTGATTCTGTGCTTTCCAAGC 13 581 894 Antisense
GAAGCACGCGAATTTCTGTCGAAAC 179 341 922 Antisense
ACATTTGCCTTGTTTCATTCGTTGG 613 103 1033 Antisense
GAGCGGTCTGATTTGTTATCTGGAG 289 387 1138 Antisense
AGACACTGATCTTGCGGAAGCGCAC 489 71 1161 Antisense
GGATCACGTTGATTACCACTTCATC 535 511 1221 Antisense
CCACTTCATCACCTATGTCAACAAG 348 275 1236 Antisense
TACGAAATCGACTCATGTGCTCCAT 571 647 1273 Antisense
CACCACCGACTCTACAATGATCAAG 365 201 1317 Antisense
Sequence Source Affymetrix Proprietary Database