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[193070_at]

Description F57B9.4 /REP_DB=WormBase Gene ID /WP=CE25012 /CHR=3 /FEA=Sanger Annotation /DEF=4-hydroxybenzoate octaprenyltransferase (ST.LOUIS) TR:Q20934 protein_id:AAA21174.1
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 84      4grp_highest_8_8 > 63      4grp_high_8_8 > 27      6grp_highest_nonorm > 73      6grp_total > 75      4grp_total > 29      6grp_cgc > 66      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 393
1 2 3 4 range
A 831.6
(1.6)
P 		860.5
(2.1)
P 		578.3
(-3)
P 		912.3
(3)
P 		334
B 806.7
(3)
P 		703
(0.8)
P 		519.7
(-3)
P 		725.3
(1.3)
P 		287
C 786.3
(3)
P 		732.7
(1.3)
P 		599.2
(-3)
P 		766.2
(2.4)
P 		187
avr 808.2
(3) 		765.4
(1.9) 		565.7
(-3) 		801.3
(2.8) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 314
1 2 3 4 5 6 range
A 498.6
(-3)
P 		559.3
(-1.5)
P 		635.2
(0.4)
P 		717.2
(2.5)
P 		561.2
(-1.4)
P 		737.5
(3)
P 		239
B 494.1
(-2.8)
P 		522.9
(-2.2)
P 		481.3
(-3)
P 		642.4
(0.1)
P 		560.8
(-1.5)
P 		795.6
(3)
P 		314
C 513
(-3)
P 		575.9
(-1.5)
P 		760.1
(3)
P 		749.5
(2.7)
P 		578.7
(-1.4)
P 		595.4
(-1)
P 		247
avr 501.9
(-3) 		552.7
(-1.5) 		625.5
(0.6) 		703
(2.8) 		566.9
(-1.1) 		709.5
(3) 		208
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 302.8
(3)
P 		186.8
(-1.1)
P 		151.2
(-2.4)
P 		133.5
(-3)
P 		169
B 257.2
(3)
P 		173.6
(-0.7)
P 		120.4
(-3)
P 		154.6
(-1.5)
P 		137
C 260.3
(3)
P 		210.7
(0.7)
P 		208.8
(0.6)
P 		129.2
(-3)
P 		131
avr 273.4
(3) 		190.4
(-0.7) 		160.1
(-2.1) 		139.1
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 205
1 2 3 4 5 6 range
A 91.9
(-3)
P 		198.9
(3)
P 		138.3
(-0.4)
P 		181.9
(2)
P 		169.4
(1.3)
P 		179.6
(1.9)
P 		107
B 171.9
(-1.2)
P 		174
(-1.1)
P 		116.9
(-3)
P 		170.1
(-1.2)
P 		227.8
(0.7)
P 		296.7
(3)
P 		180
C 190.1
(1.9)
P 		175.7
(0.1)
P 		193.5
(2.3)
P 		150.7
(-3)
P 		187.2
(1.5)
P 		199.3
(3)
P 		49
avr 151.3
(-2.9) 		182.9
(-0.4) 		149.6
(-3) 		167.6
(-1.6) 		194.8
(0.6) 		225.2
(3) 		76
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193070_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7707
Sequence Type Exemplar sequence
Representative Public ID F57B9.4 NCBI
Target Description F57B9.4 /REP_DB=WormBase Gene ID /WP=CE25012 /CHR=3 /FEA=Sanger Annotation /DEF=4-hydroxybenzoate octaprenyltransferase (ST.LOUIS) TR:Q20934 protein_id:AAA21174.1
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_066111(10), NM_066112(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066111 NCBI Caenorhabditis elegans COenzyme Q (ubiquinone) biosynthesis family member (coq-2) (coq-2) mRNA, complete cds. 10/11 None
NM_066112 NCBI Caenorhabditis elegans COenzyme Q (ubiquinone) biosynthesis family member (coq-2) (coq-2) mRNA, complete cds. 11/11 None
SNAP00000019899 ENSEMBL cdna:SNAP chromosome:CEL140:III:6936001:6939265:1 10/11 None
GENEFINDER00000019914 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6936088:6939265:1 10/11 None
F57B9.4b ENSEMBL cdna:known chromosome:CEL140:III:6935913:6939265:1 gene:F57B9.4 10/11 None
F57B9.4a ENSEMBL cdna:known chromosome:CEL140:III:6935913:6939309:1 gene:F57B9.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_181954 3/11 Cross Hyb Matching Probes None
NM_181955 7/11 Cross Hyb Matching Probes None
NM_181953 7/11 Cross Hyb Matching Probes None
F57B9.4c 7/11 Cross Hyb Matching Probes None
F57B9.4d 3/11 Cross Hyb Matching Probes None
F57B9.4e 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175969 5 2 NM_066111 193070_at (10)
NM_066112 193070_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6936086-6939264(+) 100.0 100.0
Public Domain and Genome References
Ensembl F57B9.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAW88396 Coenzyme q (ubiquinone) biosynthesis protein 2, isoform b [Caenorhabditis elegans] ref|NP_498512.1| COenzyme Q (ubiquinone) biosynthesis family member (coq-2) [Caenorhabditis elegans] 0.0
blast AAW88395 Coenzyme q (ubiquinone) biosynthesis protein 2, isoform a [Caenorhabditis elegans] ref|NP_498513.1| COenzyme Q (ubiquinone) biosynthesis family member (coq-2) [Caenorhabditis elegans] 0.0
blast AAN63396 Coenzyme q (ubiquinone) biosynthesis protein 2, isoform e [Caenorhabditis elegans] ref|NP_871684.1| COenzyme Q (ubiquinone) biosynthesis family member (coq-2) [Caenorhabditis elegans] 1.0E-171
Protein Domains
Database ID Description E-Value
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 8.9E-39
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 4.0E-23
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 1.5E-64
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 7.6E-38
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 1.0E-23
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 7.6E-38
Pfam IPR000537 EMBL-EBI UbiA prenyltransferase 1.3E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498512.1 3 78-100,163-185,192-214
NP_498513.1 3 151-173,193-215,330-352
F57B9.4b 3 78-100,163-185,192-214
F57B9.4a 3 151-173,193-215,330-352
SNAP00000019899 5 7-29,34-56,87-109,129-151,156-178
GENEFINDER00000019914 4 55-77,108-130,150-172,177-199
Sequence
Target Sequence 
>C. ELEGANS:193070_AT
tacagtgtggcagttggcgcttcttcaatggctcttgtcgttggatatcctttggcaaaa
cgtttcacctactggccacaatttgttctcggactcacgttcaattggggcgctcttctt
ggatggtgtgcgctgaaaggtgatttgtcgtctagtgcaccgttttggatgtatgcagct
gcacttcaatggacactgatctacgacactatctatgcacatcaggacaaagctgatgat
atcatgatcggtgtcaagtcgactgctcttcgccttggagctgacaccaaaaaatggtta
tcagcatttggtgtcggtactgttgcttcgttgacagcatgtggaatagcgagtgatcag
acatggccatactacgtggcacttgccgccaccacagctcaacttggatgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACAGTGTGGCAGTTGGCGCTTCTT 28 645 391 Antisense
TGGCTCTTGTCGTTGGATATCCTTT 166 545 419 Antisense
TTCACCTACTGGCCACAATTTGTTC 202 687 454 Antisense
CGGACTCACGTTCAATTGGGGCGCT 349 239 480 Antisense
TGATTTGTCGTCTAGTGCACCGTTT 184 563 531 Antisense
ATGCAGCTGCACTTCAATGGACACT 97 43 563 Antisense
ATCTACGACACTATCTATGCACATC 589 31 589 Antisense
TGATCGGTGTCAAGTCGACTGCTCT 43 567 635 Antisense
CATTTGGTGTCGGTACTGTTGCTTC 55 215 695 Antisense
TGGCCATACTACGTGGCACTTGCCG 154 545 754 Antisense
CGCCACCACAGCTCAACTTGGATGG 676 257 777 Antisense
Sequence Source Affymetrix Proprietary Database