[Home] | [Total List]

[172791_x_at] Ubiquitin family

Description K08C9.7 /REP_DB=WormBase Gene ID /WP=CE18863 /TR=Q9XUT3 /GB=CAB04588.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ubiquitin family
Cluster 6grp_total > 20      4grp_total > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 256
1 2 3 4 range
A 50
(-3)
A 		97.5
(-1.9)
A 		57.8
(-2.8)
A 		302.4
(3)
A 		252
B 153.8
(0.8)
A 		87.2
(-2.5)
A 		78
(-3)
A 		197.7
(3)
A 		120
C 97.7
(-2.6)
A 		83.2
(-3)
A 		119.7
(-2)
A 		306.1
(3)
P 		223
avr 100.5
(-2.5) 		89.3
(-2.9) 		85.2
(-3) 		268.7
(3) 		184

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 117.5
(0)
P 		111.6
(-0.4)
P 		161.1
(3)
A 		136.8
(1.3)
A 		147.4
(2.1)
A 		73.8
(-3)
A 		87
B 94
(0.7)
P 		123.3
(3)
M 		73.9
(-0.9)
A 		46.4
(-3)
A 		120.5
(2.8)
A 		94.5
(0.8)
A 		77
C 94.4
(-2.1)
A 		170.5
(3)
A 		114.1
(-0.8)
A 		144.3
(1.2)
A 		88.1
(-2.5)
A 		81
(-3)
P 		90
avr 102
(-0.8) 		135.1
(3) 		116.4
(0.8) 		109.2
(0) 		118.7
(1.1) 		83.1
(-3) 		52
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 18.2
(-2.4)
A 		21.2
(-1.7)
A 		15.1
(-3)
A 		44.3
(3)
A 		29
B 49
(3)
A 		21.5
(-2.3)
A 		18.1
(-3)
A 		42.1
(1.7)
A 		31
C 32.3
(-1.2)
A 		23.9
(-3)
A 		41.7
(0.9)
A 		51.6
(3)
P 		28
avr 33.2
(-0.2) 		22.2
(-3) 		25
(-2.3) 		46
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 21.7
(-2.2)
P 		39.7
(1.9)
P 		35.1
(0.9)
A 		34.7
(0.8)
A 		44.5
(3)
A 		18
(-3)
A 		27
B 32.7
(0.3)
P 		41
(1.7)
M 		17.9
(-2.1)
A 		12.3
(-3)
A 		48.9
(3)
A 		35.2
(0.8)
A 		37
C 35
(-1.1)
A 		52
(3)
A 		29
(-2.5)
A 		29
(-2.5)
A 		28.5
(-2.7)
A 		27.1
(-3)
P 		25
avr 29.8
(-1.6) 		44.2
(3) 		27.3
(-2.4) 		25.3
(-3) 		40.6
(1.9) 		26.8
(-2.5) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172791_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.350
Sequence Type Exemplar sequence
Representative Public ID K08C9.7 NCBI
Target Description K08C9.7 /REP_DB=WormBase Gene ID /WP=CE18863 /TR=Q9XUT3 /GB=CAB04588.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ubiquitin family
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_060536(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060536 NCBI Caenorhabditis elegans K08C9.7 (K08C9.7) mRNA, complete cds. 11/11 None
GENEFINDER00000013586 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11501158:11505936:-1 11/11 None
SNAP00000013579 ENSEMBL cdna:SNAP chromosome:CEL140:I:11503643:11505160:-1 11/11 None
K08C9.7 ENSEMBL cdna:known chromosome:CEL140:I:11503643:11504356:-1 gene:K08C9.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077221 4/11 Cross Hyb Matching Probes A 
GENEFINDER00000011746 4/11 Cross Hyb Matching Probes None
SNAP00000011740 7/11 Cross Hyb Matching Probes None
SNAP00000008153 1/11 Cross Hyb Matching Probes None
GENEFINDER00000008167 2/11 Cross Hyb Matching Probes None
SNAP00000008829 4/11 Cross Hyb Matching Probes None
GENEFINDER00000008836 2/11 Cross Hyb Matching Probes None
Y105E8B.10 7/11 Cross Hyb Matching Probes None
F34H10.1 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:9626066-9626781(+) 97.68 97.68
chrI:11503573-11504287(-) 100.0 100.0
chrI:14687044-14687759(-) 98.55 98.55
Public Domain and Genome References
Gene Title Ubiquitin family
Ensembl K08C9.7
Entrez Gene 187141 Entrez gene
SwissProt Q9XUT3 EMBL-EBI
WormBase CE18863 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04588 Hypothetical protein K08C9.7 [Caenorhabditis elegans] ref|NP_492937.1| K08C9.7 [Caenorhabditis elegans] 3.0E-49
blast CAB04588 Hypothetical protein K08C9.7 [Caenorhabditis elegans] ref|NP_492937.1| K08C9.7 [Caenorhabditis elegans] 4.0E-49
blast CAA87034 Hypothetical protein F34H10.1 [Caenorhabditis elegans] ref|NP_509622.1| F34H10.1 [Caenorhabditis elegans] sp|Q09557|YQX1_CAEEL Probable ribosomal protein F34H10.1 in chromosome III 1.0E-40
blast CAA22327 Hypothetical protein Y18D10A.18 [Caenorhabditis elegans] ref|NP_493255.1| Y18D10A.18 [Caenorhabditis elegans] 7.0E-23
blast CAB04588 Hypothetical protein K08C9.7 [Caenorhabditis elegans] ref|NP_492937.1| K08C9.7 [Caenorhabditis elegans] 2.0E-19
blast CAB54328 Hypothetical protein Y113G7B.6 [Caenorhabditis elegans] ref|NP_507898.1| Y113G7B.6 [Caenorhabditis elegans] 3.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.5E-20
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 8.4E-10
Sequence
Target Sequence 
>C. ELEGANS:172791_X_AT
gccagccacgaacaactcaagagaagaaaaagaggaagaaactacagatttgtcagctgg
gaaaggcgattgtggaatcaaggctgcagctaccatctacgtcaactgtgagcttctcgg
aggagccaagaaaagaaagaaaaaggtctacatcattccaaagaagaacaatataagcca
aaggaagtcaagctcgccgtcccccaagtacttcaaaatcgacgagaacggcaagatcag
ccgtctaccaacagggataccaacagtcagcattcagagggaagccttcatgacccagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAGCCACGAACAACTCAAGAGAA 517 279 18 Antisense
GAAACTACAGATTTGTCAGCTGGGA 278 357 55 Antisense
GTCAGCTGGGAAAGGCGATTGTGGA 17 465 69 Antisense
GGAATCAAGGCTGCAGCTACCATCT 214 531 91 Antisense
AGCTACCATCTACGTCAACTGTGAG 235 79 105 Antisense
ACTGTGAGCTTCTCGGAGGAGCCAA 369 95 122 Antisense
CCAAAGGAAGTCAAGCTCGCCGTCC 395 275 195 Antisense
TCCCCCAAGTACTTCAAAATCGACG 566 593 217 Antisense
TCAGCCGTCTACCAACAGGGATACC 225 617 254 Antisense
GGGATACCAACAGTCAGCATTCAGA 54 495 271 Antisense
CAGAGGGAAGCCTTCATGACCCAGC 90 207 292 Antisense
Sequence Source Affymetrix Proprietary Database