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[174046_s_at] phytoene synthase precursor

Description C44175 /REP_DB=TREMBL Accession /GB=C44175 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk340f7 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 85      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 73      6grp_total > 76      4grp_total > 57      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 575
1 2 3 4 range
A 528
(-2.2)
P 		857.3
(2)
P 		934
(3)
P 		461.3
(-3)
P 		473
B 508
(-2.4)
P 		685.6
(0.4)
P 		856.2
(3)
P 		468.9
(-3)
P 		387
C 531.7
(-0.7)
P 		742.6
(2.2)
P 		801.7
(3)
P 		358.9
(-3)
P 		443
avr 522.6
(-1.7) 		761.8
(1.6) 		864
(3) 		429.7
(-3) 		434

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 281
1 2 3 4 5 6 range
A 433.3
(-3)
P 		563.2
(0.7)
P 		448.9
(-2.6)
P 		527.7
(-0.3)
P 		502.1
(-1)
P 		644.4
(3)
P 		211
B 390.1
(-3)
P 		465.5
(-0.5)
P 		436.4
(-1.5)
P 		574.4
(3)
P 		481.4
(-0)
P 		521.2
(1.3)
P 		184
C 505.4
(-0.5)
P 		390.3
(-3)
P 		670.9
(3)
P 		439.3
(-2)
P 		580.3
(1.1)
P 		593.4
(1.3)
P 		281
avr 442.9
(-3) 		473
(-1.7) 		518.7
(0.2) 		513.8
(-0) 		521.3
(0.3) 		586.3
(3) 		143
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 219
1 2 3 4 range
A 192.3
(1.2)
P 		186.1
(1)
P 		244.2
(3)
P 		67.5
(-3)
P 		177
B 162
(0.8)
P 		169.3
(1.2)
P 		198.4
(3)
P 		99.9
(-3)
P 		99
C 176
(0.2)
P 		213.5
(1.2)
P 		279.4
(3)
P 		60.5
(-3)
P 		219
avr 176.8
(0.7) 		189.6
(1.1) 		240.7
(3) 		76
(-3) 		165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 120
1 2 3 4 5 6 range
A 79.9
(-3)
P 		200.3
(3)
P 		97.8
(-2.1)
P 		133.8
(-0.3)
P 		151.5
(0.6)
P 		156.9
(0.8)
P 		120
B 135.7
(-1)
P 		154.9
(0.3)
P 		106
(-3)
P 		152.1
(0.1)
P 		195.6
(3)
P 		194.3
(2.9)
P 		90
C 187.3
(2.4)
P 		119.1
(-1.3)
P 		170.8
(1.5)
P 		88.3
(-3)
P 		187.8
(2.4)
P 		198.7
(3)
P 		110
avr 134.3
(-2) 		158.1
(0.4) 		124.9
(-3) 		124.7
(-3) 		178.3
(2.5) 		183.3
(3) 		59
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174046_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20494
Sequence Type Exemplar sequence
Representative Public ID C44175 NCBI
Target Description C44175 /REP_DB=TREMBL Accession /GB=C44175 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk340f7 : 5prime 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_064057(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064057 NCBI Caenorhabditis elegans B0334.5 (B0334.5) mRNA, complete cds. 10/11 A 
SNAP00000019016 ENSEMBL cdna:SNAP chromosome:CEL140:II:11496747:11497768:1 10/11 None
GENEFINDER00000019025 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11496747:11497768:1 10/11 None
B0334.5 ENSEMBL cdna:known chromosome:CEL140:II:11496685:11499525:1 gene:B0334.5 10/11 A 
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
chrII:11497604-11497884(+) 99.64 99.64
Public Domain and Genome References
Gene Title phytoene synthase precursor
Ensembl B0334.5
Entrez Gene 174761 Entrez gene
SwissProt Q17477 EMBL-EBI
WormBase CE30122 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262641_AT expressed protein at
CANINE:1591238_AT similar to CG15738-PA cfa
CANINE_2:CFA.9707.1.A1_AT similar to CG15738-PA cfa
CANINE_2:CFAAFFX.14849.1.S1_AT similar to CG15738-PA cfa
CANINE_2:CFAAFFX.14849.1.S1_S_AT similar to CG15738-PA cfa
DROSOPHILA_2:1626353_AT dm
DROSGENOME1:144905_AT dm
CHICKEN:GGA.9523.2.S1_A_AT similar to CG15738-PA gga
MOE430B:1429213_AT RIKEN cDNA 2310030N02 gene mm
MOUSE430_2:1429213_AT RIKEN cDNA 2310030N02 gene mm
MG-U74CV2:165986_AT PREDICTED: hypothetical protein LOC76947 [Mus musculus], mRNA sequence mm
MU19KSUBA:TC16562_AT PREDICTED: hypothetical protein LOC76947 [Mus musculus], mRNA sequence mm
Protein Similarities
Method ID Description E-Value
blast CAA91382 Hypothetical protein B0334.5 [Caenorhabditis elegans] ref|NP_496458.2| B0334.5 [Caenorhabditis elegans] 0.0
blast CAE59487 Hypothetical protein CBG02872 [Caenorhabditis briggsae] 0.0
blast CAA91382 Hypothetical protein B0334.5 [Caenorhabditis elegans] ref|NP_496458.2| B0334.5 [Caenorhabditis elegans] 2.0E-34
blast AAH97249 LOC569692 protein [Danio rerio] 5.0E-29
blast CAE59487 Hypothetical protein CBG02872 [Caenorhabditis briggsae] 2.0E-26
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496458.2 2 5-27,47-69
B0334.5 2 5-27,47-69
SNAP00000019016 2 5-27,47-69
GENEFINDER00000019025 2 5-27,47-69
Sequence
Target Sequence 
>C. ELEGANS:174046_S_AT
gacagccgtgccaaagcaatgtccccagaatttgcgatgctccgaaccttgaaacaacag
caacgtcaacgacaaaactcttctcgtggaactcacagtggacgtgtctccgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAGCCGTGCCAAAGCAATGTCCC 111 369 15 Antisense
TGCCAAAGCAATGTCCCCAGAATTT 709 585 23 Antisense
CAATGTCCCCAGAATTTGCGATGCT 162 183 31 Antisense
TCCCCAGAATTTGCGATGCTCCGAA 283 597 36 Antisense
CAGAATTTGCGATGCTCCGAACCTT 396 203 40 Antisense
GATGCTCCGAACCTTGAAACAACAG 523 413 50 Antisense
GAAACAACAGCAACGTCAACGACAA 643 355 65 Antisense
AACGTCAACGACAAAACTCTTCTCG 450 143 76 Antisense
AAACTCTTCTCGTGGAACTCACAGT 34 127 89 Antisense
GGAACTCACAGTGGACGTGTCTCCG 544 529 102 Antisense
AACTCACAGTGGACGTGTCTCCGAA 618 139 104 Antisense
Sequence Source Affymetrix Proprietary Database