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[174242_s_at] tRNA synthetases class II (Gly, His, Pro and Ser)

Description C34448_rc /REP_DB=TREMBL Accession /GB=C34448 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk401e9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 86      4grp_highest_8_8 > 19      4grp_high_8_8 > 63      6grp_highest_nonorm > 82      6grp_total > 77      4grp_total > 56      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 342
1 2 3 4 range
A 378.2
(-3)
P 		437.7
(-1.7)
P 		657.7
(3)
P 		408
(-2.4)
P 		280
B 358.2
(-2.9)
P 		465.1
(1)
P 		518.8
(3)
P 		354.6
(-3)
P 		164
C 390.6
(-2.8)
P 		468.3
(-1.3)
P 		696.8
(3)
P 		378.7
(-3)
P 		318
avr 375.7
(-3) 		457
(-1) 		624.4
(3) 		380.4
(-2.9) 		249

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 324.7
(-2.2)
P 		307.5
(-3)
P 		444.2
(3)
P 		317.4
(-2.6)
P 		367.7
(-0.4)
P 		361.6
(-0.6)
P 		137
B 351
(-2.7)
P 		359.2
(-2.5)
P 		432.1
(-0.4)
P 		341.2
(-3)
P 		524.2
(2.2)
P 		553.4
(3)
P 		212
C 296.5
(-2.5)
P 		383.2
(-1.2)
P 		266.5
(-3)
P 		388.6
(-1.2)
P 		342.3
(-1.9)
P 		665.4
(3)
P 		399
avr 324.1
(-3) 		350
(-2.2) 		380.9
(-1.3) 		349.1
(-2.3) 		411.4
(-0.4) 		526.8
(3) 		203
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 183
1 2 3 4 range
A 137.7
(1.2)
P 		95
(-1.1)
P 		171.9
(3)
P 		59.7
(-3)
P 		112
B 114.2
(2.2)
P 		114.9
(2.3)
P 		120.2
(3)
P 		75.6
(-3)
P 		45
C 129.3
(-0.8)
P 		134.6
(-0.6)
P 		242.9
(3)
P 		63.9
(-3)
P 		179
avr 127.1
(0.3) 		114.8
(-0.4) 		178.3
(3) 		66.4
(-3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 59.9
(-3)
P 		109.4
(2.8)
P 		96.7
(1.3)
P 		80.5
(-0.6)
P 		110.9
(3)
P 		88
(0.3)
P 		51
B 122.1
(-1.4)
P 		119.6
(-1.6)
P 		104.9
(-2.3)
P 		90.4
(-3)
P 		213
(3)
P 		206.3
(2.7)
P 		123
C 109.9
(-1.4)
P 		116.9
(-1.1)
P 		67.8
(-3)
P 		78.2
(-2.6)
P 		110.8
(-1.3)
P 		222.7
(3)
P 		155
avr 97.3
(-2) 		115.3
(-0.8) 		89.8
(-2.5) 		83
(-3) 		144.9
(1.2) 		172.3
(3) 		89
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174242_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20289
Sequence Type Exemplar sequence
Representative Public ID C34448 NCBI
Target Description C34448_rc /REP_DB=TREMBL Accession /GB=C34448 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk401e9 : 3prime 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_060767(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060767 NCBI Caenorhabditis elegans Prolyl tRNA Synthetase family member (prs-2) (prs-2) mRNA, complete cds. 11/11 A 
SNAP00000032601 ENSEMBL cdna:SNAP chromosome:CEL140:I:12495162:12498916:1 11/11 None
GENEFINDER00000032606 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12497005:12498916:1 11/11 None
T27F6.5.2 ENSEMBL cdna:known chromosome:CEL140:I:12495072:12498999:1 gene:T27F6.5 11/11 None
T27F6.5.1 ENSEMBL cdna:known chromosome:CEL140:I:12495138:12498999:1 gene:T27F6.5 11/11 None
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
chrI:12498371-12498868(+) 100.0 100.0
Public Domain and Genome References
Gene Title tRNA synthetases class II (Gly, His, Pro and Ser)
Gene Symbol prs-2
Ensembl T27F6.5
Entrez Gene 173117 Entrez gene
SwissProt O45869 EMBL-EBI
WormBase CE16514 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29015.1.S1_AT similar to prolyl-tRNA synthetase (mitochondrial)(putative) cfa
DROSOPHILA_2:1629758_AT Prolyl-tRNA synthetase dm
DROSGENOME1:148059_AT Prolyl-tRNA synthetase dm
CHICKEN:GGA.10216.1.S1_AT prolyl-tRNA synthetase (mitochondrial)(putative) gga
CHICKEN:GGA.10216.2.S1_A_AT prolyl-tRNA synthetase (mitochondrial)(putative) gga
HU35KSUBB:RC_W86611_AT prolyl-tRNA synthetase (mitochondrial)(putative) hs
U133_X3P:HS.13036.0.S1_3P_AT prolyl-tRNA synthetase (mitochondrial)(putative) hs
HG-U133_PLUS_2:227348_AT prolyl-tRNA synthetase (mitochondrial)(putative) hs
HG-U133B:227348_AT prolyl-tRNA synthetase (mitochondrial)(putative) hs
HG-U95B:57691_AT prolyl-tRNA synthetase (mitochondrial)(putative) hs
MOUSE430_2:1427309_AT prolyl-tRNA synthetase (mitochondrial)(putative) mm
MOE430A:1427309_AT prolyl-tRNA synthetase (mitochondrial)(putative) mm
MOUSE430A_2:1427309_AT prolyl-tRNA synthetase (mitochondrial)(putative) mm
RG-U34B:RC_AI043691_AT similar to class II tRNA synthetase (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6418 tRNA aminoacylation for protein translation inferred from electronic annotation QuickGO AmiGO
6433 prolyl-tRNA aminoacylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4812 tRNA ligase activity inferred from electronic annotation QuickGO AmiGO
4827 proline-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 CAB04884 Hypothetical protein T27F6.5 [Caenorhabditis elegans] ref|NP_493168.1| Prolyl tRNA Synthetase family member (prs-2) [Caenorhabditis elegans] 0.0
blast CAE56084 Hypothetical protein CBG23667 [Caenorhabditis briggsae] 1.0E-101
Protein Domains
Database ID Description E-Value
Pfam IPR004154 EMBL-EBI Anticodon binding domain 5.0E-10
Pfam IPR002314 EMBL-EBI tRNA synthetases, class-II (G, H, P and S) 5.4E-48
Pfam IPR004154 EMBL-EBI Anticodon binding domain 5.0E-10
Pfam IPR002314 EMBL-EBI tRNA synthetases, class-II (G, H, P and S) 2.0E-21
Sequence
Target Sequence 
>C. ELEGANS:174242_S_AT
acgacgcaaatcgactcggaattccatttattctcgttattgcgaacgagacggagcgga
gtcttgcagaagcccgtcatcgaggtattcacgacacacgccaagtctgcggagcccatg
tctcagggctcaatgagcttggaccgtttcgtgacttttgtgcaatctacgctttatgga
ggtggcggagcacacgattctggtcatttggcacataatcaagtacttgatcaactcgga
tctcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGACGCAAATCGACTCGGAATTCC 154 93 13 Antisense
GACTCGGAATTCCATTTATTCTCGT 616 373 25 Antisense
GCAGAAGCCCGTCATCGAGGTATTC 650 309 78 Antisense
ATCGAGGTATTCACGACACACGCCA 114 35 91 Antisense
TCACGACACACGCCAAGTCTGCGGA 381 627 101 Antisense
GCGGAGCCCATGTCTCAGGGCTCAA 37 293 121 Antisense
GCTCAATGAGCTTGGACCGTTTCGT 513 299 140 Antisense
GACCGTTTCGTGACTTTTGTGCAAT 502 381 154 Antisense
GTGCAATCTACGCTTTATGGAGGTG 603 479 172 Antisense
CGATTCTGGTCATTTGGCACATAAT 487 247 207 Antisense
AGTACTTGATCAACTCGGATCTCAT 32 63 234 Antisense
Sequence Source Affymetrix Proprietary Database