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[173332_s_at] cytochrome C oxidase

Description AV192435 /REP_DB=TREMBL Accession /GB=AV192435 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk605c9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 29      6grp_total > 51      4grp_total > 32      6grp_highest_sub > 03_04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3833
1 2 3 4 range
A 13843.5
(-3)
P 		16051.4
(2.4)
P 		16135.2
(2.6)
P 		16296.1
(3)
P 		2453
B 13630.6
(-3)
P 		14835.8
(-0.4)
P 		16417.5
(3)
P 		14902.9
(-0.3)
P 		2787
C 12584.5
(-3)
P 		14746.2
(2.8)
P 		14735.7
(2.8)
P 		14827.9
(3)
P 		2243
avr 13352.9
(-3) 		15211.1
(1.6) 		15762.8
(3) 		15342.3
(2) 		2410

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5935
1 2 3 4 5 6 range
A 13707.3
(0.7)
P 		13186.3
(0.1)
P 		14684.9
(1.8)
P 		15786.4
(3)
P 		11881.4
(-1.4)
P 		10444.2
(-3)
P 		5342
B 14024
(1.7)
P 		12974.2
(0.5)
P 		15228.8
(3)
P 		13807.1
(1.4)
P 		12391.2
(-0.2)
P 		9851.7
(-3)
P 		5377
C 13069.6
(0.3)
P 		12408.8
(-0.6)
P 		14719
(2.6)
P 		15019.4
(3)
P 		13881
(1.4)
P 		10625.3
(-3)
P 		4394
avr 13600.3
(1.3) 		12856.4
(0.3) 		14877.6
(3) 		14871
(3) 		12717.9
(0.2) 		10307.1
(-3) 		4571
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2751
1 2 3 4 range
A 5040.4
(3)
P 		3484.3
(-0.5)
P 		4218.1
(1.1)
P 		2385.4
(-3)
P 		2655
B 4346.7
(3)
P 		3664.1
(-0.5)
P 		3804.3
(0.2)
P 		3175.8
(-3)
P 		1171
C 4165.8
(0.8)
P 		4239.6
(1)
P 		5135.9
(3)
P 		2500.2
(-3)
P 		2636
avr 4517.6
(3) 		3796
(0.6) 		4386.1
(2.6) 		2687.1
(-3) 		1831

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2508
1 2 3 4 5 6 range
A 2526.8
(-3)
P 		4689.7
(3)
P 		3198.1
(-1.1)
P 		4003.8
(1.1)
P 		3585.3
(-0.1)
P 		2542.8
(-3)
P 		2163
B 4879.7
(2.3)
P 		4318.6
(-0.1)
P 		3698
(-2.8)
P 		3657
(-3)
P 		5034.4
(3)
P 		3673.6
(-2.9)
P 		1377
C 4844.3
(3)
P 		3786.3
(-0.5)
P 		3746.2
(-0.6)
P 		3020.4
(-3)
P 		4491.7
(1.8)
P 		3556.9
(-1.2)
P 		1824
avr 4083.6
(1.5) 		4264.9
(2.4) 		3547.4
(-1.4) 		3560.4
(-1.4) 		4370.5
(3) 		3257.8
(-3) 		1113
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173332_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27981
Sequence Type Exemplar sequence
Representative Public ID AV192435 NCBI
Target Description AV192435 /REP_DB=TREMBL Accession /GB=AV192435 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk605c9 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_060195(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060195 NCBI Caenorhabditis elegans F26E4.6 (F26E4.6) mRNA, complete cds. 11/11 None
SNAP00000026226 ENSEMBL cdna:SNAP chromosome:CEL140:I:9781297:9782003:1 11/11 None
GENEFINDER00000026234 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9781297:9782003:1 11/11 None
F26E4.6.2 ENSEMBL cdna:known chromosome:CEL140:I:9781291:9782137:1 gene:F26E4.6 11/11 None
F26E4.6.1 ENSEMBL cdna:known chromosome:CEL140:I:9781293:9782137:1 gene:F26E4.6 11/11 None
F26E4.6.3 ENSEMBL cdna:known chromosome:CEL140:I:9781296:9782137:1 gene:F26E4.6 11/11 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
chrI:9781251-9782063(+) 94.1 94.1
Public Domain and Genome References
Gene Title cytochrome C oxidase
Ensembl F26E4.6
Entrez Gene 3565338 Entrez gene
SwissProt O18687 EMBL-EBI
WormBase CE30519 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4129 cytochrome-c oxidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02999 Hypothetical protein F26E4.6 [Caenorhabditis elegans] ref|NP_492596.2| F26E4.6 [Caenorhabditis elegans] 2.0E-43
blast CAE60230 Hypothetical protein CBG03801 [Caenorhabditis briggsae] 6.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR004202 EMBL-EBI Cytochrome c oxidase subunit VIIc 1.2E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492596.2 1 54-76
F26E4.6.2 1 54-76
F26E4.6.1 1 54-76
F26E4.6.3 1 54-76
SNAP00000026226 1 54-76
GENEFINDER00000026234 1 54-76
Sequence
Target Sequence 
>C. ELEGANS:173332_S_AT
caagccgtcagaaagggccacagcagccactcgccatcggccgtcacgtacaccggacaa
ggaccaaacactttcgtcaatgacggttgggcctctgctcgtctcccattccacgtcacc
aacaagtggggattcgccgccaaggccgtcactttcctcgcaatcggattctgggctcca
tnnnnnnnnnnnnagtatcaactcagaaaggccaaccaa

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGCCGTCAGAAAGGGCCACAGCA 231 187 23 Antisense
TCAGAAAGGGCCACAGCAGCCACTC 501 603 30 Antisense
CGTCACGTACACCGGACAAGGACCA 180 245 64 Antisense
GGACAAGGACCAAACACTTTCGTCA 308 525 77 Antisense
GGACCAAACACTTTCGTCAATGACG 206 511 83 Antisense
TTTCGTCAATGACGGTTGGGCCTCT 634 667 94 Antisense
CCCATTCCACGTCACCAACAAGTGG 83 259 127 Antisense
CACCAACAAGTGGGGATTCGCCGCC 678 201 139 Antisense
TCACTTTCCTCGCAATCGGATTCTG 427 627 171 Antisense
TTCCTCGCAATCGGATTCTGGGCTC 609 699 176 Antisense
GTATCAACTCAGAAAGGCCAACCAA 656 453 217 Antisense
Sequence Source Affymetrix Proprietary Database