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[191487_at] phytoene synthase precursor

Description B0334.5 /REP_DB=WormBase Gene ID /WP=CE20449 /TR=Q17477 /GB=CAA91382.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=phytoene synthase precursor
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 73      6grp_total > 06      4grp_total > 59      6grp_highest_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 559
1 2 3 4 range
A 797.9
(1.1)
P 		931.1
(3)
P 		866.5
(2.1)
P 		500.5
(-3)
P 		431
B 800
(1.6)
P 		918.8
(3)
P 		789
(1.5)
P 		411.8
(-3)
P 		507
C 743.7
(1.2)
P 		904.3
(3)
P 		853.2
(2.4)
P 		372.6
(-3)
P 		532
avr 780.5
(1.3) 		918.1
(3) 		836.2
(2) 		428.3
(-3) 		490

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 257
1 2 3 4 5 6 range
A 669.2
(3)
P 		606.4
(0.9)
P 		487.7
(-3)
P 		569.7
(-0.3)
P 		546.2
(-1.1)
P 		586
(0.2)
P 		182
B 650.8
(3)
P 		565.9
(0.9)
P 		412
(-3)
P 		551.5
(0.5)
P 		438.4
(-2.3)
P 		476.7
(-1.4)
P 		239
C 595.1
(1.1)
P 		586.8
(0.8)
P 		651.9
(3)
P 		471.5
(-3)
P 		640.3
(2.6)
P 		502.7
(-2)
P 		180
avr 638.4
(3) 		586.4
(0.4) 		517.2
(-3) 		530.9
(-2.3) 		541.6
(-1.8) 		521.8
(-2.8) 		121
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 235
1 2 3 4 range
A 290.5
(3)
P 		202.1
(0.6)
P 		226.5
(1.2)
P 		73.3
(-3)
P 		217
B 255.1
(3)
P 		226.9
(2)
P 		182.8
(0.4)
P 		87.7
(-3)
P 		167
C 246.2
(1.7)
P 		260
(2)
P 		297.4
(3)
P 		62.8
(-3)
P 		235
avr 263.9
(3) 		229.7
(1.9) 		235.6
(2.1) 		74.6
(-3) 		189

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 123.4
(-2.1)
P 		215.7
(3)
P 		106.2
(-3)
P 		144.5
(-0.9)
P 		164.8
(0.2)
P 		142.7
(-1)
P 		110
B 226.5
(3)
P 		188.4
(1.2)
P 		100
(-3)
P 		146.1
(-0.8)
P 		178.1
(0.7)
P 		177.8
(0.7)
P 		127
C 220.6
(3)
P 		179.1
(1)
P 		165.9
(0.4)
P 		94.8
(-3)
P 		207.2
(2.4)
P 		168.3
(0.5)
P 		126
avr 190.2
(2.6) 		194.4
(3) 		124
(-3) 		128.5
(-2.6) 		183.4
(2.1) 		162.9
(0.3) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191487_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3230
Sequence Type Exemplar sequence
Representative Public ID B0334.5 NCBI
Target Description B0334.5 /REP_DB=WormBase Gene ID /WP=CE20449 /TR=Q17477 /GB=CAA91382.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=phytoene synthase precursor
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_064057(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064057 NCBI Caenorhabditis elegans B0334.5 (B0334.5) mRNA, complete cds. 11/11 A 
SNAP00000019017 ENSEMBL cdna:SNAP chromosome:CEL140:II:11498054:11499377:1 11/11 None
GENEFINDER00000019023 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11497982:11499377:1 11/11 None
B0334.5 ENSEMBL cdna:known chromosome:CEL140:II:11496685:11499525:1 gene:B0334.5 11/11 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:11496743-11499374(+) 99.91 99.91
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] 1.0E-169
blast CAA91382 Hypothetical protein B0334.5 [Caenorhabditis elegans] ref|NP_496458.2| B0334.5 [Caenorhabditis elegans] 1.0E-155
blast CAE59487 Hypothetical protein CBG02872 [Caenorhabditis briggsae] 1.0E-148
blast CAE59487 Hypothetical protein CBG02872 [Caenorhabditis briggsae] 1.0E-138
blast AAH97249 LOC569692 protein [Danio rerio] 5.0E-29
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
Sequence
Target Sequence 
>C. ELEGANS:191487_AT
tcaacctgttgctattgctctgtgctctttcgccgctggtgccaactctgacatgcttct
gaaactggttgaaactcgccagtcaacaattggtgataggcagttttctgatattaatgc
tttatgcgaatatggcaaatcaacaatcgggtctcttctgtgcctacaaatcgatgctct
tgctcgtaactctccagaaactaaagtactcccaatggcctacgatgttgcaaaagatct
cggagccgcgtatgctatcgccaatatgattcgtgccacacatccactactggctcgtgg
aatcgttcttctaccagctgatgtgatgtctttaaatggtgccacaccggatagtcttta
taaaaagaagaagctcgatgagatggttggaatgacaaaagatctggtcaacgagtcaaa
acgattacttattgatgctcgaagtccgatagaaatggtaccgaaagctgtgagacctgc
gcttgcagccactggagccacaactgactatatcattaaaacaatcgaaaagaataatta
tgacatctactctcctcatcttcaacgtcgaaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACCTGTTGCTATTGCTCTGTGC 432 631 546 Antisense
GCCAACTCTGACATGCTTCTGAAAC 78 279 586 Antisense
GCAAATCAACAATCGGGTCTCTTCT 354 317 680 Antisense
TCTTGCTCGTAACTCTCCAGAAACT 517 617 723 Antisense
AAAGTACTCCCAATGGCCTACGATG 643 119 748 Antisense
AGATCTCGGAGCCGCGTATGCTATC 195 67 780 Antisense
TATGATTCGTGCCACACATCCACTA 98 657 810 Antisense
ACTACTGGCTCGTGGAATCGTTCTT 632 101 831 Antisense
TCGTTCTTCTACCAGCTGATGTGAT 113 605 848 Antisense
GAAAGCTGTGAGACCTGCGCTTGCA 188 359 1008 Antisense
TCTCCTCATCTTCAACGTCGAAATC 34 609 1096 Antisense
Sequence Source Affymetrix Proprietary Database