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[189770_at] PNP/PMP oxidase

Description F57B9.1 /REP_DB=WormBase Gene ID /WP=CE01335 /TR=SW:Q20939 /GB=AAA21167.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=PNP-PMP oxidase
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 73      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 55      6grp_total > 73      4grp_total > 25      6grp_highest_sub > 04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1095
1 2 3 4 range
A 1116.7
(-3)
P 		2123
(2.6)
P 		1619
(-0.2)
P 		2198
(3)
P 		1081
B 1103.5
(-3)
P 		1765.6
(1.1)
P 		1593
(0.1)
P 		2063.9
(3)
P 		960
C 1219
(-3)
P 		1611
(1)
P 		1660.4
(1.5)
P 		1813.6
(3)
P 		595
avr 1146.4
(-3) 		1833.2
(1.7) 		1624.1
(0.3) 		2025.2
(3) 		879

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1017
1 2 3 4 5 6 range
A 1101.4
(-3)
P 		1240.7
(-2)
P 		1702.1
(1.4)
P 		1924.7
(3)
P 		1586.5
(0.5)
P 		1367.9
(-1.1)
P 		823
B 1135.4
(-1.9)
P 		993
(-3)
P 		1750.9
(2.8)
P 		1782.6
(3)
P 		1420.1
(0.2)
P 		1529.2
(1.1)
P 		790
C 1108.7
(-2.6)
P 		1046.5
(-3)
P 		1830.8
(1.9)
P 		2009.8
(3)
P 		1378.8
(-0.9)
P 		1785.8
(1.6)
P 		963
avr 1115.2
(-2.8) 		1093.4
(-3) 		1761.3
(1.9) 		1905.7
(3) 		1461.8
(-0.3) 		1561
(0.5) 		812
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 273
1 2 3 4 range
A 406.6
(0.7)
P 		460.8
(3)
P 		423.2
(1.4)
P 		321.7
(-3)
P 		139
B 351.9
(-3)
P 		436.1
(2.7)
P 		369.1
(-1.8)
P 		439.8
(3)
P 		88
C 403.5
(-0.9)
P 		463.2
(0.5)
P 		578.7
(3)
P 		305.8
(-3)
P 		273
avr 387.3
(-1.1) 		453.4
(2.8) 		457
(3) 		355.8
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 395
1 2 3 4 5 6 range
A 203
(-3)
P 		441.2
(2)
P 		370.7
(0.5)
P 		488.1
(3)
P 		478.7
(2.8)
P 		333
(-0.3)
P 		285
B 395.1
(-1.4)
P 		330.5
(-3)
P 		425.2
(-0.7)
P 		472.2
(0.4)
P 		577
(3)
P 		570.2
(2.8)
P 		247
C 410.9
(-1)
P 		319.3
(-3)
P 		466
(0.2)
P 		404.2
(-1.2)
P 		446.2
(-0.3)
P 		597.8
(3)
P 		279
avr 336.3
(-3) 		363.7
(-2) 		420.6
(0.1) 		454.8
(1.3) 		500.6
(3) 		500.3
(3) 		164
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189770_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6091
Sequence Type Exemplar sequence
Representative Public ID F57B9.1 NCBI
Target Description F57B9.1 /REP_DB=WormBase Gene ID /WP=CE01335 /TR=SW:Q20939 /GB=AAA21167.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=PNP-PMP oxidase
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_066117(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066117 NCBI Caenorhabditis elegans F57B9.1 (F57B9.1) mRNA, complete cds. 11/11 None
SNAP00000009452 ENSEMBL cdna:SNAP chromosome:CEL140:III:6962433:6963135:1 11/11 None
F57B9.1 ENSEMBL cdna:known chromosome:CEL140:III:6962100:6963187:1 gene:F57B9.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000009471 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6962097-6963133(+) 100.0 100.0
Public Domain and Genome References
Gene Title PNP/PMP oxidase
Ensembl F57B9.1
Entrez Gene 175973 Entrez gene
SwissProt Q20939 EMBL-EBI
WormBase CE01335 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1589487_AT similar to Pyridoxine-5-phosphate oxidase (Pyridoxamine-phosphate oxidase) cfa
CANINE_2:CFA.11459.1.S1_AT similar to Pyridoxine-5-phosphate oxidase (Pyridoxamine-phosphate oxidase) cfa
CANINE_2:CFAAFFX.25708.1.S1_S_AT similar to Pyridoxine-5-phosphate oxidase (Pyridoxamine-phosphate oxidase) cfa
DROSOPHILA_2:1635552_S_AT dm
HG-U133_PLUS_2:218511_S_AT pyridoxine 5'-phosphate oxidase hs
HG-U133A:218511_S_AT pyridoxine 5'-phosphate oxidase hs
HG-U133A_2:218511_S_AT pyridoxine 5'-phosphate oxidase hs
HU35KSUBA:RC_AA172372_AT pyridoxine 5'-phosphate oxidase hs
U133_X3P:G8922497_3P_A_AT pyridoxine 5'-phosphate oxidase hs
HG-U133_PLUS_2:222653_AT pyridoxine 5'-phosphate oxidase hs
HG-U133B:222653_AT pyridoxine 5'-phosphate oxidase hs
HG-U95B:58963_AT pyridoxine 5'-phosphate oxidase hs
HG-U95E:85098_AT pyridoxine 5'-phosphate oxidase hs
HU35KSUBC:RC_AA428900_AT Pyridoxine 5'-phosphate oxidase hs
MOUSE430_2:1415793_AT pyridoxine 5'-phosphate oxidase mm
MOUSE430A_2:1415793_AT pyridoxine 5'-phosphate oxidase mm
MOE430A:1415793_AT pyridoxine 5'-phosphate oxidase mm
MU11KSUBA:AA220757_AT pyridoxine 5'-phosphate oxidase mm
MG-U74AV2:94920_AT pyridoxine 5'-phosphate oxidase mm
MG-U74AV2:94921_I_AT Pyridoxine 5'-phosphate oxidase, mRNA (cDNA clone MGC:36350 IMAGE:4971745) mm
MU19KSUBC:TC39662_AT Pyridoxine 5'-phosphate oxidase, mRNA (cDNA clone MGC:36350 IMAGE:4971745) mm
YEAST_2:1777391_AT Pyridoxine (pyridoxamine) phosphate oxidase, has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8615 pyridoxine biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4733 pyridoxamine-phosphate oxidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA21167 Hypothetical protein F57B9.1 [Caenorhabditis elegans] ref|NP_498518.1| F57B9.1 [Caenorhabditis elegans] sp|Q20939|PDXH_CAEEL Putative pyridoxamine 5'-phosphate oxidase (PNP/PMP oxidase) (PNPOx) 1.0E-144
blast CAE70054 Hypothetical protein CBG16488 [Caenorhabditis briggsae] 1.0E-112
blast AAA21167 Hypothetical protein F57B9.1 [Caenorhabditis elegans] ref|NP_498518.1| F57B9.1 [Caenorhabditis elegans] sp|Q20939|PDXH_CAEEL Putative pyridoxamine 5'-phosphate oxidase (PNP/PMP oxidase) (PNPOx) 1.0E-112
blast CAE70054 Hypothetical protein CBG16488 [Caenorhabditis briggsae] 7.0E-99
blast CAE68469 Hypothetical protein CBG14267 [Caenorhabditis briggsae] 4.0E-94
blast CAE68469 Hypothetical protein CBG14267 [Caenorhabditis briggsae] 5.0E-85
Protein Domains
Database ID Description E-Value
Pfam IPR000659 EMBL-EBI Pyridoxamine 5-phosphate oxidase 2.6E-24
Pfam IPR000659 EMBL-EBI Pyridoxamine 5-phosphate oxidase 2.6E-24
Sequence
Target Sequence 
>C. ELEGANS:189770_AT
ccacgtcaccattcgaactttttgatatctggtttcgtaacgtcgcttcacaatctgact
taacattcgaagaaatcaatgcagtatccttatccaccgtcggaaaagatcttcgtccat
catccagaatggttcttctgaaagcgtacacaccaactggcttctcgttttacacaaatt
atactagccgcaaaggaaatcaattggaagagaatccgaatgccgcgatgctcttttatt
ggcctaaagtcaatcgtcagattcgagttgaaggtgttgttgagaagcttccagatgaga
tggccgtcgcttattggaattctagaccagtagcaagtcgaatcggatcaaaatcaagtg
atcaatcaaaagtggttcccgatagagaattcttagaatccaaaaaagttgcactgacag
agttatctgtacgggaaggagctcaagcaatcacgaaaccagaatcctggggtggatatc
atttgattcctcgatattttgaattctggcaaggacaatcggatcgtcttcacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACGTCACCATTCGAACTTTTTGA 335 275 182 Antisense
GGTTTCGTAACGTCGCTTCACAATC 507 505 212 Antisense
GTATCCTTATCCACCGTCGGAAAAG 251 439 265 Antisense
GTCGGAAAAGATCTTCGTCCATCAT 216 473 280 Antisense
GAAAGCGTACACACCAACTGGCTTC 501 359 321 Antisense
ACTGGCTTCTCGTTTTACACAAATT 270 95 337 Antisense
AAGAGAATCCGAATGCCGCGATGCT 400 153 389 Antisense
TGCCGCGATGCTCTTTTATTGGCCT 227 583 402 Antisense
GATGGCCGTCGCTTATTGGAATTCT 196 407 480 Antisense
GGAGCTCAAGCAATCACGAAACCAG 499 521 619 Antisense
AAGGACAATCGGATCGTCTTCACGA 261 161 692 Antisense
Sequence Source Affymetrix Proprietary Database