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[184469_at]

Description Y60A3A.13 /REP_DB=WormBase Gene ID /WP=CE26686 /TR=Q9U1Z3 /GB=CAB60398.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 90      4grp_high_8_8 > 62      6grp_total > 0      4grp_total > 56      6grp_total_sub > Hat      6grp_cgc > 64      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 571
1 2 3 4 range
A 531.2
(-1.6)
P 		679.3
(0.4)
P 		861.7
(3)
P 		435.1
(-3)
P 		427
B 673.8
(2.8)
P 		632
(2)
M 		681.9
(3)
P 		381.5
(-3)
M 		300
C 594.5
(-2.5)
M 		815.7
(0.9)
A 		952.5
(3)
P 		562.8
(-3)
P 		390
avr 599.8
(-0.7) 		709
(1) 		832
(3) 		459.8
(-3) 		372

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 401
1 2 3 4 5 6 range
A 487.8
(-2.2)
A 		751.8
(1.7)
P 		436.7
(-3)
P 		837.7
(3)
P 		565.3
(-1.1)
P 		631.4
(-0.1)
P 		401
B 532.6
(-1.9)
P 		712.6
(1.9)
P 		479.6
(-3)
P 		632.6
(0.2)
P 		765.7
(3)
P 		582.8
(-0.8)
P 		286
C 514.7
(-3)
P 		708.5
(3)
P 		699.3
(2.7)
P 		660.4
(1.5)
P 		694.7
(2.6)
P 		702.7
(2.8)
P 		194
avr 511.7
(-3) 		724.3
(3) 		538.5
(-2.2) 		710.2
(2.6) 		675.2
(1.6) 		639
(0.6) 		213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 268
1 2 3 4 range
A 193.4
(1.8)
P 		147.5
(0.1)
P 		225.3
(3)
P 		63.7
(-3)
P 		162
B 214.9
(3)
P 		156.1
(0.4)
M 		158
(0.4)
P 		81.3
(-3)
M 		134
C 196.8
(-0.4)
M 		234.5
(0.5)
A 		332
(3)
P 		94.9
(-3)
P 		237
avr 201.7
(1.6) 		179.4
(0.8) 		238.4
(3) 		80
(-3) 		158

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 221
1 2 3 4 5 6 range
A 89.9
(-3)
A 		267.4
(3)
P 		95.1
(-2.8)
P 		212.5
(1.1)
P 		170.6
(-0.3)
P 		153.7
(-0.8)
P 		178
B 185.3
(-0.9)
P 		237.2
(0.7)
P 		116.5
(-3)
P 		167.6
(-1.4)
P 		311.1
(3)
P 		217.3
(0.1)
P 		195
C 190.8
(0.4)
P 		216.2
(1.9)
P 		178
(-0.4)
P 		132.8
(-3)
P 		224.8
(2.4)
P 		235.3
(3)
P 		103
avr 155.3
(-1.6) 		240.3
(3) 		129.9
(-3) 		171
(-0.8) 		235.5
(2.7) 		202.1
(0.9) 		110
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184469_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12851
Sequence Type Exemplar sequence
Representative Public ID Y60A3A.13 NCBI
Target Description Y60A3A.13 /REP_DB=WormBase Gene ID /WP=CE26686 /TR=Q9U1Z3 /GB=CAB60398.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_075451
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y60A3A.13.2 ENSEMBL cdna:known chromosome:CEL140:V:19896160:19905433:-1 gene:Y60A3A.13 None
GENEFINDER00000032842 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19902211:19905430:-1 None
NM_075451 NCBI Caenorhabditis elegans phenylalanyl (F) tRNA Synthetase family member (frs-3) (frs-3) mRNA, complete cds. A 
SNAP00000032795 ENSEMBL cdna:SNAP chromosome:CEL140:V:19902211:19920588:-1 None
Y60A3A.13.1 ENSEMBL cdna:known chromosome:CEL140:V:19896077:19905431:-1 gene:Y60A3A.13 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000032841 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:19901973-19905430(-) 82.14 100.0
Public Domain and Genome References
Gene Title
Gene Symbol frs-3
Ensembl Y60A3A.13
Entrez Gene 180303 Entrez gene
SwissProt Q9U1Z3 EMBL-EBI
WormBase CE26224 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251573_AT phenylalanyl-tRNA synthetase class IIc family protein at
CANINE_2:CFA.17131.1.S1_AT similar to Phenylalanyl-tRNA synthetase, mitochondrial precursor (Phenylalanine--tRNA ligase) (PheRS) cfa
CANINE_2:CFAAFFX.14922.1.S1_S_AT similar to Phenylalanyl-tRNA synthetase, mitochondrial precursor (Phenylalanine--tRNA ligase) (PheRS) cfa
DROSOPHILA_2:1636872_AT Phenylalanyl-tRNA synthetase dm
DROSGENOME1:154396_AT Phenylalanyl-tRNA synthetase dm
CHICKEN:GGA.6746.1.S1_AT phenylalanine-tRNA synthetase 2 (mitochondrial) gga
CHICKEN:GGAAFFX.24002.1.S1_AT phenylalanine-tRNA synthetase 2 (mitochondrial) gga
HG-U133A:204283_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133_PLUS_2:204283_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-FOCUS:204283_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133A_2:204283_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133_PLUS_2:204282_S_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133A:204282_S_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133A_2:204282_S_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HU35KSUBC:RC_AA488691_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
U133_X3P:G5729819_3P_A_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U95AV2:36504_AT phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133_PLUS_2:234758_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133B:234758_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133_PLUS_2:215414_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133A_2:215414_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133A:215414_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
U133_X3P:HS.306878.0.S1_3P_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
U133_X3P:HS.306878.0.A1_3P_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133_PLUS_2:234177_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HG-U133B:234177_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
HU35KSUBD:RC_C21124_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) hs
MOUSE430A_2:1431354_A_AT phenylalanine-tRNA synthetase 2 (mitochondrial) mm
MOE430A:1431354_A_AT phenylalanine-tRNA synthetase 2 (mitochondrial) mm
MOUSE430_2:1431354_A_AT phenylalanine-tRNA synthetase 2 (mitochondrial) mm
MU11KSUBB:MSA.10155.0_S_AT phenylalanine-tRNA synthetase 2 (mitochondrial) mm
MG-U74AV2:103608_AT phenylalanine-tRNA synthetase 2 (mitochondrial) mm
MG-U74CV2:138383_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MOUSE430A_2:1439406_X_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MOE430A:1439406_X_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MOUSE430_2:1439406_X_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MU19KSUBA:TC15694_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MU19KSUBA:TC16462_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
MU19KSUBA:TC22295_AT Phenylalanine-tRNA synthetase 2 (mitochondrial) (Fars2), mRNA mm
RG-U34B:RC_AA946505_AT phenylalanine-tRNA synthetase 1 (mitochondrial) (predicted) rn
RAE230A:1390267_AT phenylalanine-tRNA synthetase 1 (mitochondrial) (predicted) rn
RAT230_2:1390267_AT phenylalanine-tRNA synthetase 1 (mitochondrial) (predicted) rn
YEAST_2:1773228_AT Mitochondrial phenylalanyl-tRNA synthetase alpha subunit, active as a monomer, unlike the cytoplasmic subunit which is active as a dimer complexed to a beta subunit dimer; similar to the alpha subunit of E. coli phenylalanyl-tRNA synthetase Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6432 phenylalanyl-tRNA aminoacylation inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4826 phenylalanine-tRNA ligase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAC14396 Hypothetical protein Y60A3A.13 [Caenorhabditis elegans] emb|CAB60398.3| Hypothetical protein Y60A3A.13 [Caenorhabditis elegans] ref|NP_507852.2| phenylalanyl (F) tRNA Synthetase family member (frs-3) [Caenorhabditis elegans] dbj|BAC76737.1| mitochondrial phenylalanyl-tRNA synthetase [Caenorhabditis elegans] 0.0
blast CAE56732 Hypothetical protein CBG24520 [Caenorhabditis briggsae] 0.0
blast CAB60407 Hypothetical protein Y60A3A.12 [Caenorhabditis elegans] ref|NP_001024271.1| CHeckpoint Kinase family member (chk-2) [Caenorhabditis elegans] sp|Q9U1Y5|CHK2_CAEEL Serine/threonine-protein kinase chk-2 (Ce-cds-1) (Ce-chk-2) dbj|BAB20578.1| Ce-CDS-1 [Caenorhabditis elegans] 0.0
blast BAB15803.1 CeCHK2 [Caenorhabditis elegans] 0.0
blast CAB07420 Hypothetical protein T08D2.7 [Caenorhabditis elegans] ref|NP_508060.1| T08D2.7 [Caenorhabditis elegans] 0.0
blast CAC14396 Hypothetical protein Y60A3A.13 [Caenorhabditis elegans] emb|CAB60398.3| Hypothetical protein Y60A3A.13 [Caenorhabditis elegans] ref|NP_507852.2| phenylalanyl (F) tRNA Synthetase family member (frs-3) [Caenorhabditis elegans] dbj|BAC76737.1| mitochondrial phenylalanyl-tRNA synthetase [Caenorhabditis elegans] 1.0E-164
Protein Families
Method ID Description E-Value
hanks 2.1.8 CaMK Group; CaMK I Regulated by Ca2+/CaM and close relatives; DdMLCK 2.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR002319 EMBL-EBI Phenylalanyl-tRNA synthetase, class IIc 4.7E-96
Pfam IPR005121 EMBL-EBI Ferredoxin-fold anticodon binding domain 7.6E-22
Pfam IPR000253 EMBL-EBI Forkhead-associated (FHA) 2.2E-12
Pfam IPR000719 EMBL-EBI Protein kinase 2.2E-22
Pfam IPR000719 EMBL-EBI Protein kinase 6.6E-33
Pfam IPR002319 EMBL-EBI Phenylalanyl-tRNA synthetase, class IIc 3.9E-59
Pfam IPR002319 EMBL-EBI Phenylalanyl-tRNA synthetase, class IIc 3.9E-59
Sequence
Target Sequence 
>C. ELEGANS:184469_AT
ctcggctcaccagcacaatttaatgcaatcgggtctcgacgcgtttttagtgattggaga
cgtctatcggagggatgaagtcgatcggacacattatccatgcttccatcagatcgaagg
tgttcggctctactcgaaagacgaactactcggcaaaaagccggacggaaaaaatgtggc
cgaacttttttccacggccgcctccgcggccacggagaggtcccctgaaaaacaggaaaa
acacacgttggacgcgacgaaagccgccgaaattcaactgaaacagtttctcgaaaatct
ttgtgatgaacttttcggaaaagacgccgaaaaacgatgggttgatgcatatttcccgtt
tacacatccctcgtgggagttggaggtgcgggcggaaaaatccccattttcgacaggaaa
atctgaaaatggcaattttttaccaaaaaattcgaattccccgccgcaaattacccctaa
ccccccaatttttcagcgttttagtgcaattttgcatcaaatctggtgtctctggggtta
ctgtagcgcggtgtttgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCGGCTCACCAGCACAATTTAATG 54 233 477 Antisense
TAATGCAATCGGGTCTCGACGCGTT 238 637 497 Antisense
GTCGATCGGACACATTATCCATGCT 638 473 556 Antisense
TTATCCATGCTTCCATCAGATCGAA 98 679 570 Antisense
ATCGAAGGTGTTCGGCTCTACTCGA 199 27 589 Antisense
TGGACGCGACGAAAGCCGCCGAAAT 569 547 725 Antisense
GTTGATGCATATTTCCCGTTTACAC 125 439 817 Antisense
CGTTTACACATCCCTCGTGGGAGTT 468 245 833 Antisense
GAGGTGCGGGCGGAAAAATCCCCAT 59 395 859 Antisense
CAAATCTGGTGTCTCTGGGGTTACT 563 191 994 Antisense
GGGTTACTGTAGCGCGGTGTTTGCG 82 493 1011 Antisense
Sequence Source Affymetrix Proprietary Database