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[173963_s_at] Ubiquitin carboxyl-terminal hydrolases family 2

Description CE6291 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y43F4B.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=T01629 /WB_GENE_ID=Y43F4B.2 /WP=CE16627 /CHR=3 /FEA=Genomic Cluster /DEF=wEST02350 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEEST44, mRNA sequence.
Cluster 6grp_highest_10_10 > 45      6grp_high1_10_10 > 53      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 65      6grp_total > 54      4grp_total > 22      6grp_high1_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 827
1 2 3 4 range
A 1027.4
(3)
P 		926.1
(1.7)
P 		562.5
(-3)
P 		986
(2.5)
P 		465
B 1033.2
(2)
P 		761.2
(-1.4)
P 		631.2
(-3)
P 		1115.3
(3)
P 		484
C 1306.1
(2.2)
P 		769.5
(-2.6)
P 		728.3
(-3)
P 		1389.6
(3)
P 		661
avr 1122.2
(2.5) 		818.9
(-1) 		640.7
(-3) 		1163.6
(3) 		523

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 837
1 2 3 4 5 6 range
A 849.4
(-3)
P 		1065.9
(-1.4)
P 		1685.9
(3)
P 		904.3
(-2.6)
P 		1142.2
(-0.9)
P 		920.1
(-2.5)
P 		837
B 1279.3
(-0.7)
P 		1318.2
(-0.1)
P 		1519.7
(3)
P 		1134.3
(-3)
P 		1310.6
(-0.3)
P 		1362.6
(0.6)
P 		385
C 1021.2
(-1.7)
P 		1376.1
(2.5)
P 		907.7
(-3)
P 		1270.3
(1.3)
P 		1047.7
(-1.4)
P 		1416.8
(3)
P 		509
avr 1050
(-3) 		1253.4
(0.8) 		1371.1
(3) 		1103
(-2) 		1166.8
(-0.8) 		1233.2
(0.4) 		321
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 288
1 2 3 4 range
A 374.1
(3)
P 		201
(-1.5)
P 		147
(-2.9)
P 		144.3
(-3)
P 		230
B 329.5
(3)
P 		188
(-1.6)
P 		146.3
(-3)
P 		237.7
(-0)
P 		183
C 432.4
(3)
P 		221.2
(-3)
P 		253.8
(-2.1)
P 		234.3
(-2.6)
P 		211
avr 378.7
(3) 		203.4
(-2.4) 		182.4
(-3) 		205.4
(-2.3) 		196

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 376
1 2 3 4 5 6 range
A 156.6
(-3)
P 		379.1
(3)
P 		367.1
(2.7)
P 		229.4
(-1)
P 		344.7
(2.1)
P 		224
(-1.2)
P 		223
B 445.1
(0.7)
P 		438.8
(0.6)
P 		369
(-1.2)
P 		300.4
(-3)
P 		532.5
(3)
P 		508.1
(2.4)
P 		232
C 378.5
(0.6)
P 		419.9
(1.7)
P 		231
(-3)
P 		255.5
(-2.4)
P 		339
(-0.3)
P 		474.3
(3)
P 		243
avr 326.7
(-0.4) 		412.6
(3) 		322.4
(-0.6) 		261.8
(-3) 		405.4
(2.7) 		402.1
(2.6) 		151
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173963_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24059
Sequence Type Exemplar sequence
Representative Public ID CE6291 NCBI
Target Description CE6291 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y43F4B.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=T01629 /WB_GENE_ID=Y43F4B.2 /WP=CE16627 /CHR=3 /FEA=Genomic Cluster /DEF=wEST02350 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEEST44, mRNA sequence.
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_001027477(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027477 NCBI Caenorhabditis elegans K01A11.5 (K01A11.5) mRNA, complete cds. 11/11 None
GENEFINDER00000044028 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5347719:5350516:-1 10/11 None
GENEFINDER00000007808 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13293197:13295739:-1 10/11 None
K01A11.5 ENSEMBL cdna:known chromosome:CEL140:III:3448551:3451084:-1 gene:K01A11.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_058517 8/11 Cross Hyb Matching Probes A 
SNAP00000010014 7/11 Cross Hyb Matching Probes None
GENEFINDER00000010017 7/11 Cross Hyb Matching Probes None
SNAP00000004335 7/11 Cross Hyb Matching Probes None
GENEFINDER00000004345 8/11 Cross Hyb Matching Probes None
GENEFINDER00000013906 7/11 Cross Hyb Matching Probes None
SNAP00000013903 7/11 Cross Hyb Matching Probes None
Y20F4.4 8/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title Ubiquitin carboxyl-terminal hydrolases family 2
Ensembl K01A11.5
Entrez Gene 3565365 Entrez gene
SwissProt Q6A4R1 EMBL-EBI
WormBase CE36444 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH10807 Hypothetical protein K01A11.5 [Caenorhabditis elegans] ref|NP_001022648.1| K01A11.5 [Caenorhabditis elegans] 0.0
blast NP_490918 Y20F4.4 [Caenorhabditis elegans] gb|AAL00866.2| Hypothetical protein Y20F4.4 [Caenorhabditis elegans] 0.0
blast CAA16331 Hypothetical protein Y43F4B.2 [Caenorhabditis elegans] ref|NP_499739.1| Y43F4B.2 [Caenorhabditis elegans] 0.0
blast AAA79350 Hypothetical protein F09E5.10 [Caenorhabditis elegans] ref|NP_495000.1| F09E5.10 [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:173963_S_AT
ggagaatgtatcatcacaacgactatcaaaacctgcgaggagtgattcaaaagaccattc
aactatcaaaatcattgatcctagacttgaagagacgatccggaaatcgaacaaccgctg
tgccattatacaaaaaccccgatttctgtacttcagtgtttttgaattataccggtttca
gtgcttttaatgagaaacttttcccttttatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGAATGTATCATCACAACGACTA 522 519 834 Antisense
ACAACGACTATCAAAACCTGCGAGG 419 111 849 Antisense
AAACCTGCGAGGAGTGATTCAAAAG 469 111 862 Antisense
AAGACCATTCAACTATCAAAATCAT 124 155 884 Antisense
CATTGATCCTAGACTTGAAGAGACG 553 217 906 Antisense
GACGATCCGGAAATCGAACAACCGC 526 377 927 Antisense
GAACAACCGCTGTGCCATTATACAA 275 353 942 Antisense
GTGCCATTATACAAAAACCCCGATT 180 479 953 Antisense
AACCCCGATTTCTGTACTTCAGTGT 224 143 968 Antisense
TATACCGGTTTCAGTGCTTTTAATG 159 653 1001 Antisense
TAATGAGAAACTTTTCCCTTTTATG 141 635 1021 Antisense
Sequence Source Affymetrix Proprietary Database