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[191028_at] aminoacyl-tRNA synthetase

Description F28H1.3 /REP_DB=WormBase Gene ID /WP=CE09768 /TR=O01541 /GB=AAB52339.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=aminoacyl-tRNA synthetase
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 47      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 66      6grp_total > 47      4grp_total > 49      6grp_highest_sub > Cu      6grp_cgc > 16      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1643
1 2 3 4 range
A 2049.5
(-2.3)
P 		2711.9
(2.4)
P 		2798.4
(3)
P 		1951.1
(-3)
P 		847
B 1897.3
(-3)
P 		2790.9
(0.3)
P 		3516.4
(3)
P 		2487.3
(-0.8)
P 		1619
C 1873.8
(-3)
P 		3082.6
(3)
P 		2918.9
(2.2)
P 		1919.9
(-2.8)
P 		1209
avr 1940.2
(-3) 		2861.8
(1.9) 		3077.9
(3) 		2119.4
(-2.1) 		1138

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1080
1 2 3 4 5 6 range
A 2052.4
(2.9)
P 		1606.7
(-0.2)
P 		1324.9
(-2.2)
P 		1486.5
(-1.1)
P 		1214.3
(-3)
P 		2062.5
(3)
P 		848
B 1752.1
(3)
P 		1550.4
(1.4)
P 		1648.6
(2.2)
P 		1469.9
(0.8)
P 		982.2
(-3)
P 		1505
(1.1)
P 		770
C 1774.2
(3)
P 		1367.2
(-1.5)
P 		1690.2
(2.1)
P 		1236.4
(-3)
P 		1567.5
(0.7)
P 		1650.3
(1.6)
P 		538
avr 1859.6
(3) 		1508.1
(-0.5) 		1554.6
(-0) 		1397.6
(-1.6) 		1254.7
(-3) 		1739.3
(1.8) 		605
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 732
1 2 3 4 range
A 746.2
(3)
P 		588.7
(0.9)
P 		731.6
(2.8)
P 		285.6
(-3)
P 		461
B 605
(-1.4)
P 		689.3
(0.4)
P 		814.8
(3)
P 		530
(-3)
P 		285
C 620.3
(-0.4)
P 		886.3
(1.9)
P 		1017.3
(3)
P 		323.7
(-3)
P 		694
avr 657.2
(0.5) 		721.4
(1.3) 		854.6
(3) 		379.8
(-3) 		475

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 378.4
(-1.1)
P 		571.4
(3)
P 		288.5
(-3)
P 		377
(-1.1)
P 		366.4
(-1.3)
P 		502.2
(1.5)
P 		283
B 609.6
(3)
P 		516.1
(0.5)
P 		400.3
(-2.7)
P 		389.3
(-3)
P 		399
(-2.7)
P 		561.2
(1.7)
P 		220
C 657.6
(3)
P 		417.2
(-0.5)
P 		430.2
(-0.3)
P 		248.6
(-3)
P 		507.2
(0.8)
P 		552.4
(1.5)
P 		409
avr 548.5
(3) 		501.6
(1.7) 		373
(-2) 		338.3
(-3) 		424.2
(-0.5) 		538.6
(2.7) 		210
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191028_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.69
Sequence Type Exemplar sequence
Representative Public ID F28H1.3 NCBI
Target Description F28H1.3 /REP_DB=WormBase Gene ID /WP=CE09768 /TR=O01541 /GB=AAB52339.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=aminoacyl-tRNA synthetase
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_058880(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058880 NCBI Caenorhabditis elegans Alanyl tRNA Synthetase family member (ars-2) (ars-2) mRNA, complete cds. 11/11 A 
SNAP00000015486 ENSEMBL cdna:SNAP chromosome:CEL140:I:3979871:3986386:1 11/11 None
GENEFINDER00000015491 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3980055:3986386:1 11/11 None
F28H1.3.2 ENSEMBL cdna:known chromosome:CEL140:I:3983173:3986579:1 gene:F28H1.3 11/11 None
F28H1.3.3 ENSEMBL cdna:known chromosome:CEL140:I:3983185:3986579:1 gene:F28H1.3 11/11 None
F28H1.3.1 ENSEMBL cdna:known chromosome:CEL140:I:3983186:3986917:1 gene:F28H1.3 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:3983206-3986386(+) 100.0 100.0
Public Domain and Genome References
Gene Title aminoacyl-tRNA synthetase
Gene Symbol ars-2
Ensembl F28H1.3
Entrez Gene 171985 Entrez gene
SwissProt O01541 EMBL-EBI
WormBase CE09768 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262468_AT aminoacyl-tRNA synthetase family protein at
ATGENOME1:20661_AT aminoacyl-tRNA synthetase family protein at
ATGENOME1:20662_G_AT aminoacyl-tRNA synthetase family protein at
CANINE:1583501_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFA.11417.1.A1_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFA.17308.1.S1_S_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFAAFFX.30820.1.S1_S_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFAAFFX.30821.1.S1_S_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFAAFFX.30821.1.S1_X_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFAAFFX.30825.1.S1_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
CANINE_2:CFAAFFX.30825.1.S1_X_AT similar to Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) cfa
DROSOPHILA_2:1639644_AT Alanyl-tRNA synthetase dm
DROSGENOME1:141462_AT Alanyl-tRNA synthetase dm
CHICKEN:GGA.1138.1.S1_S_AT alanyl-tRNA synthetase gga
CHICKEN:GGA.9132.1.S1_S_AT alanyl-tRNA synthetase gga
HG-U133A:201000_AT alanyl-tRNA synthetase hs
HG-U133_PLUS_2:201000_AT alanyl-tRNA synthetase hs
HG-U133A_2:201000_AT alanyl-tRNA synthetase hs
HG-FOCUS:201000_AT alanyl-tRNA synthetase hs
HU35KSUBC:RC_AA074054_S_AT alanyl-tRNA synthetase hs
HUGENEFL:D32050_AT alanyl-tRNA synthetase hs
U133_X3P:G4501840_3P_AT alanyl-tRNA synthetase hs
HG-U95AV2:36185_AT alanyl-tRNA synthetase hs
MOE430A:1423685_AT alanyl-tRNA synthetase mm
MOUSE430A_2:1423685_AT alanyl-tRNA synthetase mm
MOUSE430_2:1423685_AT alanyl-tRNA synthetase mm
MOE430A:1451083_S_AT alanyl-tRNA synthetase mm
MOUSE430_2:1451083_S_AT alanyl-tRNA synthetase mm
MOUSE430A_2:1451083_S_AT alanyl-tRNA synthetase mm
MU11KSUBA:AA217762_S_AT alanyl-tRNA synthetase mm
MU11KSUBA:AA254996_S_AT alanyl-tRNA synthetase mm
MU11KSUBB:MSA.14652.0_S_AT alanyl-tRNA synthetase mm
MU11KSUBB:MSA.3753.0_S_AT alanyl-tRNA synthetase mm
MU11KSUBB:MSA.36295.0_S_AT alanyl-tRNA synthetase mm
MU11KSUBB:MSA.29927.0_S_AT alanyl-tRNA synthetase mm
MG-U74AV2:94918_AT alanyl-tRNA synthetase mm
MG-U74BV2:108898_AT alanyl-tRNA synthetase mm
MU19KSUBB:TC26656_AT Alanyl-tRNA synthetase, mRNA (cDNA clone MGC:25868 IMAGE:4196789) mm
RG-U34C:RC_AI180068_AT alanyl-tRNA synthetase (predicted) rn
RAE230A:1388394_AT alanyl-tRNA synthetase (predicted) rn
RAT230_2:1388394_AT alanyl-tRNA synthetase (predicted) rn
YEAST_2:1776171_AT Cytoplasmic alanyl-tRNA synthetase, required for protein synthesis; point mutation (cdc64-1 allele) causes cell cycle arrest at G1; lethality of null mutation is functionally complemented by human homolog Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6419 alanyl-tRNA aminoacylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4813 alanine-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 NP_491281 Alanyl tRNA Synthetase family member (ars-2) [Caenorhabditis elegans] gb|AAB52339.1| Alanyl trna synthetase protein 2 [Caenorhabditis elegans] 0.0
blast CAE66735 Hypothetical protein CBG12085 [Caenorhabditis briggsae] 0.0
blast P21894 Alanyl-tRNA synthetase (Alanine--tRNA ligase) (AlaRS) gb|AAA27821.1| transfer RNA-Ala synthetase 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003156 EMBL-EBI Phosphoesterase, DHHA1 1.0E-19
Pfam IPR002318 EMBL-EBI Alanyl-tRNA synthetase, class IIc 1.0E-126
Pfam IPR003156 EMBL-EBI Phosphoesterase, DHHA1 1.0E-19
Pfam IPR002318 EMBL-EBI Alanyl-tRNA synthetase, class IIc 1.0E-126
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 1.3E-4
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 5.1E-9
Pfam IPR003156 EMBL-EBI Phosphoesterase, DHHA1 1.0E-19
Pfam IPR002318 EMBL-EBI Alanyl-tRNA synthetase, class IIc 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:191028_AT
gaaagagccattgccagagccgatcgactgactgctcgattagaagaagaatcgaagcat
gccgataagaaggatgagctcttggccaacaaggataagttcaaggctctccagaagaag
attcaagaaattgtcgatgaagccaacggagctcagctgccatactggcgaaaggattct
atccgtgaaaaggcaaaggccattcagaagactttggatggatacacaaaggcacaacaa
gccgctgtcgctgaaaaggttcttggagaagccaaggaacttgctgctgtcgctgagcag
cctactgttctcgttcacgtcttcgccgccaatgctaacagcaaagccatcgataatgct
ctgaaacttctcaaggacacaaaagcagttatggctttctctgtgaatgaagattctgga
aaagttttgtgtcttgctaaagttgataagagcttggtgagcaacggcctgaaagccaac
gagtgggtgaatgaagtttgcacagttctcggtggaaaaggtggtggaaaggacgcaaat
gctcagctcaccggagagaatgtcgataaacttgatgctgccgtcgaactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGAGCCATTGCCAGAGCCGATC 84 361 2296 Antisense
CAGAGCCGATCGACTGACTGCTCGA 150 205 2310 Antisense
AGAAGGATGAGCTCTTGGCCAACAA 40 73 2363 Antisense
GATGAAGCCAACGGAGCTCAGCTGC 597 411 2431 Antisense
CACAACAAGCCGCTGTCGCTGAAAA 160 195 2528 Antisense
GGAACTTGCTGCTGTCGCTGAGCAG 570 529 2571 Antisense
CTTCGCCGCCAATGCTAACAGCAAA 524 219 2616 Antisense
AAGAGCTTGGTGAGCAACGGCCTGA 690 151 2743 Antisense
GAAGTTTGCACAGTTCTCGGTGGAA 375 337 2788 Antisense
AAAGGACGCAAATGCTCAGCTCACC 582 121 2823 Antisense
TAAACTTGATGCTGCCGTCGAACTC 261 639 2862 Antisense
Sequence Source Affymetrix Proprietary Database