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[190915_at] arginyl-tRNA synthetase

Description C29H12.1 /REP_DB=WormBase Gene ID /WP=CE17479 /TR=Q18316 /GB=AAC46694.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=arginyl-tRNA synthetase
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 95      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 92      6grp_total > 86      4grp_total > 02      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 522
1 2 3 4 range
A 201.5
(-1.3)
P 		170.2
(-1.8)
P 		97.3
(-3)
P 		463.4
(3)
P 		366
B 187.7
(-2.9)
P 		178.3
(-3)
P 		219.4
(-2.4)
P 		619.6
(3)
P 		441
C 211.8
(-2.6)
P 		183.3
(-3)
P 		194.4
(-2.8)
P 		595.4
(3)
P 		412
avr 200.3
(-2.5) 		177.3
(-2.9) 		170.4
(-3) 		559.5
(3) 		389

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 437
1 2 3 4 5 6 range
A 213.6
(-3)
P 		246.9
(-2.5)
P 		222.8
(-2.9)
P 		414.2
(0.1)
P 		359.2
(-0.7)
P 		597.6
(3)
P 		384
B 160.6
(-3)
P 		216.9
(-1.9)
P 		250.2
(-1.3)
P 		334.7
(0.3)
P 		306.3
(-0.2)
P 		477.6
(3)
P 		317
C 241.6
(-3)
P 		239.1
(-3)
P 		277.7
(-2.3)
P 		412.4
(0.1)
P 		498.5
(1.7)
P 		572.9
(3)
P 		334
avr 205.3
(-3) 		234.3
(-2.5) 		250.2
(-2.2) 		387.1
(0.2) 		388
(0.2) 		549.4
(3) 		344
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 73.4
(3)
P 		36.9
(-1.6)
P 		25.4
(-3)
P 		67.8
(2.3)
P 		48
B 59.9
(-1.9)
P 		44
(-3)
P 		50.8
(-2.5)
P 		132
(3)
P 		88
C 70.1
(-0.8)
P 		52.7
(-3)
P 		67.7
(-1.1)
P 		100.4
(3)
P 		48
avr 67.8
(-0.5) 		44.5
(-3) 		48
(-2.6) 		100.1
(3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 39.4
(-3)
P 		87.8
(-0.3)
P 		48.5
(-2.5)
P 		105
(0.7)
P 		108.4
(0.9)
P 		145.5
(3)
P 		106
B 55.9
(-3)
P 		72.2
(-2.2)
P 		60.7
(-2.8)
P 		88.7
(-1.4)
P 		124.4
(0.4)
P 		178.1
(3)
P 		122
C 89.5
(-2.1)
P 		73
(-2.9)
P 		70.7
(-3)
P 		82.9
(-2.4)
P 		161.3
(1.5)
P 		191.8
(3)
P 		121
avr 61.6
(-2.9) 		77.7
(-2.1) 		60
(-3) 		92.2
(-1.3) 		131.4
(0.8) 		171.8
(3) 		112
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190915_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5030
Sequence Type Exemplar sequence
Representative Public ID C29H12.1 NCBI
Target Description C29H12.1 /REP_DB=WormBase Gene ID /WP=CE17479 /TR=Q18316 /GB=AAC46694.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=arginyl-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_062826(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062826 NCBI Caenorhabditis elegans aRginyl aa-tRNA syntheTase family member (rrt-2) (rrt-2) mRNA, complete cds. 11/11 None
SNAP00000038444 ENSEMBL cdna:SNAP chromosome:CEL140:II:6125512:6127670:1 11/11 None
C29H12.1 ENSEMBL cdna:known chromosome:CEL140:II:6125512:6127892:1 gene:C29H12.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000038445 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6125508-6127667(+) 100.0 100.0
Public Domain and Genome References
Gene Title arginyl-tRNA synthetase
Gene Symbol rrt-2
Ensembl C29H12.1
Entrez Gene 174023 Entrez gene
SwissProt Q18316 EMBL-EBI
WormBase CE17479 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6418 tRNA aminoacylation for protein translation inferred from electronic annotation QuickGO AmiGO
6420 arginyl-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
4814 arginine-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 AAL02449 Arginyl aa-trna synthetase protein 2 [Caenorhabditis elegans] ref|NP_495227.1| aRginyl aa-tRNA syntheTase family member (rrt-2) [Caenorhabditis elegans] 0.0
blast CAE59251 Hypothetical protein CBG02577 [Caenorhabditis briggsae] 0.0
blast XP_539032 PREDICTED: similar to arginyl-tRNA synthetase-like isoform 1 [Canis familiaris] 6.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR001278 EMBL-EBI Arginyl-tRNA synthetase, class Ic 1.2E-37
Pfam IPR008909 EMBL-EBI Arginyl tRNA synthetase anticodon binding 9.5E-28
Sequence
Target Sequence 
>C. ELEGANS:190915_AT
gcgaacgtcttatcactttcaacggtagtgttcaatgaattaaaacgagcacgaaattcg
gaatatgaattttcatttcaaaatgcgtttgctctgaaccaaaacaatgctctggccctt
cagatgaagcacagccgattgtcatctattgaagagaagcaccaacacctatttcctcaa
attgaagcatgcacaaaattcaatgattttgatacgaatgatgatgtaaaaagattgatt
cgattgttgaacgacttggaaaaggcagtggagttgagtgcagagaaattggaagcatgc
caattaactgtgcaactgattcatgtggcagccgcagctggaagcgttcagaaacaatta
cgagttaaagatcaaccagatgaggttgcagtccctcgtttactgctattctctgctgtt
cggaacgttcttgctgaaggcctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAACGTCTTATCACTTTCAACGG 27 253 1072 Antisense
GAACCAAAACAATGCTCTGGCCCTT 113 345 1167 Antisense
ATGCTCTGGCCCTTCAGATGAAGCA 404 41 1178 Antisense
GAAGCACAGCCGATTGTCATCTATT 449 341 1197 Antisense
AGAGAAGCACCAACACCTATTTCCT 570 69 1224 Antisense
GAAGCATGCCAATTAACTGTGCAAC 541 341 1363 Antisense
AACTGATTCATGTGGCAGCCGCAGC 405 141 1385 Antisense
ACCAGATGAGGTTGCAGTCCCTCGT 661 85 1446 Antisense
TGCAGTCCCTCGTTTACTGCTATTC 644 577 1458 Antisense
CTATTCTCTGCTGTTCGGAACGTTC 79 225 1477 Antisense
TCGGAACGTTCTTGCTGAAGGCCTT 320 605 1491 Antisense
Sequence Source Affymetrix Proprietary Database