[Home] | [Total List]

[175215_at] ubiquitin caroboxyl-terminal hydrolase

Description AV177353_rc /REP_DB=TREMBL Accession /GB=AV177353 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk527f6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 63      4grp_highest_8_8 > 15      4grp_high_8_8 > 13      6grp_highest_nonorm > 90      6grp_total > 60      4grp_total > 10      6grp_highest_sub > 03_04      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 190
(0.2)
P 		217.2
(2.5)
P 		152.9
(-3)
P 		223.4
(3)
P 		71
B 159.2
(-3)
P 		195.5
(-1.4)
P 		188.1
(-1.8)
P 		299
(3)
P 		140
C 200.2
(-2.1)
P 		178.3
(-3)
P 		200.4
(-2)
P 		316.7
(3)
P 		138
avr 183.1
(-2.8) 		197
(-2) 		180.5
(-3) 		279.7
(3) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 196
1 2 3 4 5 6 range
A 173.2
(0.4)
P 		185
(1.5)
P 		155.5
(-1.2)
P 		200.6
(3)
P 		136.2
(-3)
P 		165.8
(-0.2)
P 		64
B 140.9
(-2.5)
P 		154.5
(-2)
P 		288.6
(3)
P 		220.1
(0.5)
P 		126.9
(-3)
P 		180.1
(-1)
P 		162
C 132.4
(-1.2)
P 		116
(-1.9)
P 		188.3
(1.4)
P 		222.8
(3)
P 		92.2
(-3)
P 		182.8
(1.2)
P 		131
avr 148.8
(-1.1) 		151.8
(-0.9) 		210.8
(2.8) 		214.5
(3) 		118.4
(-3) 		176.2
(0.6) 		96
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 69.2
(3)
P 		47.2
(-0.6)
P 		40
(-1.8)
P 		32.7
(-3)
P 		37
B 50.8
(-0.9)
P 		48.3
(-1.6)
P 		43.6
(-3)
P 		63.7
(3)
P 		20
C 66.3
(1.8)
P 		51.2
(-3)
P 		69.9
(3)
P 		53.4
(-2.3)
P 		19
avr 62.1
(3) 		48.9
(-3) 		51.2
(-2) 		49.9
(-2.5) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 31.9
(-3)
P 		65.8
(3)
P 		33.9
(-2.6)
P 		50.9
(0.4)
P 		41.1
(-1.4)
P 		40.4
(-1.5)
P 		34
B 49
(-3)
P 		51.4
(-2.3)
P 		70.1
(3)
P 		58.3
(-0.4)
P 		51.6
(-2.3)
P 		67.2
(2.2)
P 		21
C 49.1
(0.7)
P 		35.4
(-1.9)
P 		47.9
(0.5)
P 		44.8
(-0.1)
P 		29.8
(-3)
P 		61.2
(3)
P 		31
avr 43.3
(-2) 		50.9
(0.9) 		50.6
(0.8) 		51.3
(1.1) 		40.8
(-3) 		56.3
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175215_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22334
Sequence Type Exemplar sequence
Representative Public ID AV177353 NCBI
Target Description AV177353_rc /REP_DB=TREMBL Accession /GB=AV177353 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk527f6 : 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_078169(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078169 NCBI Caenorhabditis elegans K09A9.4 (K09A9.4) mRNA, complete cds. 11/11 A 
K09A9.4.2 ENSEMBL cdna:known chromosome:CEL140:X:15591285:15595269:1 gene:K09A9.4 11/11 None
K09A9.4.1 ENSEMBL cdna:known chromosome:CEL140:X:15591286:15595525:1 gene:K09A9.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000037628 4/11 Cross Hyb Matching Probes None
SNAP00000037622 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:15594946-15595226(+) 100.0 100.0
Public Domain and Genome References
Gene Title ubiquitin caroboxyl-terminal hydrolase
Ensembl K09A9.4
Entrez Gene 181647 Entrez gene
SwissProt Q93875 EMBL-EBI
WormBase CE31559 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
6511 ubiquitin-dependent protein catabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4197 cysteine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
4221 ubiquitin thiolesterase activity inferred from electronic annotation QuickGO AmiGO
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01885 Hypothetical protein K09A9.4 [Caenorhabditis elegans] ref|NP_510570.2| K09A9.4 [Caenorhabditis elegans] 0.0
blast CAE63331 Hypothetical protein CBG07731 [Caenorhabditis briggsae] 1.0E-141
blast XP_698168 PREDICTED: similar to ubiquitin specific protease 3 [Danio rerio] 2.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR001394 EMBL-EBI Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2 1.7E-97
Sequence
Target Sequence 
>C. ELEGANS:175215_AT
aatgggttgaacgtcggctggaagaggaaagagaacttgatgaaacgcatcgactattgt
atcaagatgaatcgattcccaacacttccggctgatttaattattaatattcactgtttt
aactagtcaaaagttcggtctacatatttttcatctccatacattcggttcaagcggttc
aagcacaagaatcacattaataattccaaccaagtaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGGGTTGAACGTCGGCTGGAAGA 539 163 45 Antisense
GAACGTCGGCTGGAAGAGGAAAGAG 6 347 53 Antisense
GAAACGCATCGACTATTGTATCAAG 78 359 86 Antisense
AGATGAATCGATTCCCAACACTTCC 519 67 109 Antisense
AATATTCACTGTTTTAACTAGTCAA 87 173 150 Antisense
CTAGTCAAAAGTTCGGTCTACATAT 60 225 167 Antisense
GGTCTACATATTTTTCATCTCCATA 393 503 181 Antisense
CATCTCCATACATTCGGTTCAAGCG 686 211 196 Antisense
ATTCGGTTCAAGCGGTTCAAGCACA 222 9 207 Antisense
GCGGTTCAAGCACAAGAATCACATT 639 287 218 Antisense
ACATTAATAATTCCAACCAAGTACA 108 103 238 Antisense
Sequence Source Affymetrix Proprietary Database