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[189854_s_at] phytoene desaturase

Description F37C4.6 /REP_DB=WormBase Gene ID /WP=CE17049 /TR=O61196 /GB=AAB95172.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=phytoene desaturase
Cluster 6grp_high1_10_10 > 04      6grp_total > 05      4grp_total > 60      6grp_high1_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 296
1 2 3 4 range
A 371.2
(1.8)
P 		410.1
(2.9)
P 		413.5
(3)
P 		199.3
(-3)
A 		214
B 356.9
(1.9)
P 		355.6
(1.9)
P 		408.3
(3)
P 		117.3
(-3)
M 		291
C 329.1
(1.8)
P 		346
(2.3)
P 		372.5
(3)
P 		148
(-3)
A 		225
avr 352.4
(1.9) 		370.6
(2.3) 		398.1
(3) 		154.9
(-3) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 174
1 2 3 4 5 6 range
A 295.2
(3)
P 		240
(0.1)
P 		245.9
(0.4)
P 		192.6
(-2.5)
P 		206.8
(-1.7)
P 		182.9
(-3)
P 		112
B 239.1
(3)
P 		179.3
(-0)
P 		220.2
(2)
P 		120.8
(-3)
P 		171.4
(-0.4)
P 		173.5
(-0.3)
P 		118
C 211.7
(-0.8)
P 		242.5
(1.7)
P 		198.1
(-1.9)
P 		258.7
(3)
M 		252.1
(2.5)
P 		184.4
(-3)
P 		74
avr 248.7
(3) 		220.6
(0.5) 		221.4
(0.6) 		190.7
(-2.1) 		210.1
(-0.4) 		180.3
(-3) 		68
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 135.2
(3)
P 		89
(0.4)
P 		108.1
(1.5)
P 		29.2
(-3)
A 		106
B 113.8
(3)
P 		87.8
(1.2)
P 		94.6
(1.7)
P 		25
(-3)
M 		89
C 109
(1.8)
P 		99.5
(1.3)
P 		129.8
(3)
P 		24.9
(-3)
A 		105
avr 119.3
(3) 		92.1
(1.2) 		110.8
(2.5) 		26.4
(-3) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 54.4
(-1.5)
P 		85.4
(3)
P 		53.5
(-1.7)
P 		48.8
(-2.4)
P 		62.4
(-0.4)
P 		44.5
(-3)
P 		41
B 83.2
(3)
P 		59.7
(0.2)
P 		53.5
(-0.5)
P 		32
(-3)
P 		69.6
(1.4)
P 		64.7
(0.8)
P 		51
C 78.5
(2.4)
P 		74
(1.5)
P 		50.4
(-3)
P 		52
(-2.7)
M 		81.6
(3)
P 		61.7
(-0.8)
P 		31
avr 72
(2.8) 		73
(3) 		52.5
(-1.3) 		44.3
(-3) 		71.2
(2.6) 		57
(-0.3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189854_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10774
Sequence Type Exemplar sequence
Representative Public ID F37C4.6 NCBI
Target Description F37C4.6 /REP_DB=WormBase Gene ID /WP=CE17049 /TR=O61196 /GB=AAB95172.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=phytoene desaturase
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_068027(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068027 NCBI Caenorhabditis elegans F37C4.6 (F37C4.6) mRNA, complete cds. 11/11 None
SNAP00000038135 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3875482:3878325:-1 11/11 None
GENEFINDER00000038143 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3875482:3878325:-1 11/11 None
F37C4.6.1 ENSEMBL cdna:known chromosome:CEL140:IV:3875405:3878327:-1 gene:F37C4.6 11/11 None
F37C4.6.2 ENSEMBL cdna:known chromosome:CEL140:IV:3875405:3878366:-1 gene:F37C4.6 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
chrIV:3875487-3878331(-) 100.0 100.0
Public Domain and Genome References
Gene Title phytoene desaturase
Ensembl F37C4.6
Entrez Gene 177147 Entrez gene
SwissProt O61196 EMBL-EBI
WormBase CE17049 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248613_AT amine oxidase-related at
CANINE:1598951_AT similar to F37C4.6 cfa
CANINE_2:CFA.5532.1.A1_AT similar to F37C4.6 cfa
CANINE_2:CFAAFFX.14757.1.S1_S_AT similar to F37C4.6 cfa
CHICKEN:GGA.19182.1.S1_AT similar to chromosome 10 open reading frame 33 gga
HU35KSUBD:RC_AA404246_AT chromosome 10 open reading frame 33 hs
U133_X3P:HS.97031.0.A1_3P_S_AT chromosome 10 open reading frame 33 hs
HG-U133_PLUS_2:228384_S_AT chromosome 10 open reading frame 33 hs
HG-U133B:228384_S_AT chromosome 10 open reading frame 33 hs
HG-U95C:51785_S_AT chromosome 10 open reading frame 33 hs
HG-U95C:57817_AT chromosome 10 open reading frame 33 hs
HG-U133_PLUS_2:232942_AT Chromosome 10 open reading frame 33 hs
HG-U133B:232942_AT Chromosome 10 open reading frame 33 hs
HU35KSUBC:RC_N75941_AT Chromosome 10 open reading frame 33 hs
U133_X3P:HS.292868.0.S1_3P_AT Chromosome 10 open reading frame 33 hs
HG-U95B:58857_AT Chromosome 10 open reading frame 33 hs
MOUSE430_2:1437590_AT RIKEN cDNA 4833409A17 gene mm
MOE430B:1437590_AT RIKEN cDNA 4833409A17 gene mm
MOE430B:1453491_AT RIKEN cDNA 4833409A17 gene mm
MOUSE430_2:1453491_AT RIKEN cDNA 4833409A17 gene mm
MOE430B:1437089_AT RIKEN cDNA 4833409A17 gene mm
MOUSE430_2:1437089_AT RIKEN cDNA 4833409A17 gene mm
MG-U74CV2:133771_AT PREDICTED: hypothetical protein LOC74580 [Mus musculus], mRNA sequence mm
RAE230B:1398031_AT similar to hypothetical protein MGC13047 rn
RAT230_2:1398031_AT similar to hypothetical protein MGC13047 rn
RAE230B:1378802_AT similar to hypothetical protein MGC13047 rn
RAT230_2:1378802_AT similar to hypothetical protein MGC13047 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
16117 carotenoid biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen inferred from electronic annotation QuickGO AmiGO
50660 FAD binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB95172 Hypothetical protein F37C4.6 [Caenorhabditis elegans] ref|NP_500428.1| F37C4.6 [Caenorhabditis elegans] 0.0
blast CAE65667 Hypothetical protein CBG10733 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:189854_S_AT
gaaggagcttccgaacttcttggccaaaccgaatcaaggatcagagccaatgccacatca
tcagacgacgattcatatgaactgtgagaatatgcaagtggtgcatgacgcggtgatgga
ttataagaacgggagatatagtagaagaccagtcatcgagatgacaattccctcttcagt
cgaccgaaccattgtggatagtgctgatggtcacgtcgtcctcctctttacccagtacac
tcccttctcaccgaaagacggtgaatggacggaagaaaagaagacagaatacgcgaaaca
cgtcttctcggagatagacgcttatgcaccgaacttttcatcaagtgtcataggctatga
catcttgaccccacccgatattcagaacacttttgggattactggagggaacatcttcca
cggatctatgagccttgaccagctgtacgtgtcccgcccgatcagcaaatggagcaacta
ctcaacgcccatcgagtccctctacctctgcggaagtggtgctcacccgggaggtggtgt
gac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGAGCTTCCGAACTTCTTGGCC 574 323 1056 Antisense
TCAGAGCCAATGCCACATCATCAGA 365 623 1096 Antisense
TCATCGAGATGACAATTCCCTCTTC 91 621 1208 Antisense
ATAGTGCTGATGGTCACGTCGTCCT 615 19 1253 Antisense
TACGCGAAACACGTCTTCTCGGAGA 381 647 1345 Antisense
AGATAGACGCTTATGCACCGAACTT 204 67 1367 Antisense
CATAGGCTATGACATCTTGACCCCA 335 213 1404 Antisense
CACGGATCTATGAGCCTTGACCAGC 320 199 1474 Antisense
AAATGGAGCAACTACTCAACGCCCA 367 121 1522 Antisense
TACCTCTGCGGAAGTGGTGCTCACC 169 649 1558 Antisense
GTGCTCACCCGGGAGGTGGTGTGAC 441 479 1574 Antisense
Sequence Source Affymetrix Proprietary Database