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[190443_s_at]

Description T02G5.9 /REP_DB=WormBase Gene ID /WP=CE04861 /CHR=2 /FEA=Sanger Annotation /DEF=lysyl-tRNA synthetase (ST.LOUIS) SW:Q22099 protein_id:AAA82396.1
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 56      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 57      6grp_total > 56      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 36      6grp_high1_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3809
1 2 3 4 range
A 4618.9
(0.3)
P 		5573.8
(2.1)
P 		6043.5
(3)
P 		2907.6
(-3)
P 		3136
B 3892.3
(-0.4)
P 		5163.4
(1.8)
P 		5836.1
(3)
P 		2384.6
(-3)
P 		3452
C 4629.6
(1.3)
P 		5551.5
(3)
P 		5459.1
(2.8)
P 		2234.8
(-3)
P 		3317
avr 4380.3
(0.4) 		5429.6
(2.4) 		5779.6
(3) 		2509
(-3) 		3271

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1860
1 2 3 4 5 6 range
A 3009.9
(1.7)
P 		3020.1
(1.7)
P 		2198.9
(-1)
P 		2460.9
(-0.1)
P 		1579.7
(-3)
P 		3402.9
(3)
P 		1823
B 2326.8
(-0.2)
P 		2148.8
(-1.5)
P 		2195.2
(-1.2)
P 		2429.8
(0.5)
P 		1936.6
(-3)
P 		2786.1
(3)
P 		850
C 2750.8
(-0.1)
P 		2251.4
(-2.4)
P 		3440.1
(3)
P 		2107.8
(-3)
P 		2822.6
(0.2)
P 		2861.9
(0.4)
P 		1332
avr 2695.8
(0.9) 		2473.4
(-0.6) 		2611.4
(0.3) 		2332.8
(-1.5) 		2113
(-3) 		3017
(3) 		904
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1526
1 2 3 4 range
A 1681.7
(3)
P 		1209.9
(0.7)
P 		1579.9
(2.5)
P 		425.6
(-3)
P 		1256
B 1241.2
(2.2)
P 		1275.2
(2.5)
P 		1352.4
(3)
P 		508.2
(-3)
P 		844
C 1532.5
(1.5)
P 		1596.1
(1.8)
P 		1902.7
(3)
P 		376.8
(-3)
P 		1526
avr 1485.1
(2.4) 		1360.4
(1.7) 		1611.7
(3) 		436.9
(-3) 		1175

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 650
1 2 3 4 5 6 range
A 554.8
(-2.2)
P 		1074.1
(3)
P 		478.9
(-3)
P 		624.1
(-1.5)
P 		476.7
(-3)
P 		828.5
(0.5)
P 		597
B 809.6
(0.3)
P 		715.2
(-0.8)
P 		533
(-3)
P 		643.6
(-1.7)
P 		786.8
(0)
P 		1038.9
(3)
P 		506
C 1019.6
(3)
P 		687
(-0.4)
P 		875.6
(1.5)
P 		423.9
(-3)
P 		913.3
(1.9)
P 		958
(2.4)
P 		596
avr 794.7
(0.7) 		825.4
(1.2) 		629.2
(-2) 		563.9
(-3) 		725.6
(-0.4) 		941.8
(3) 		378
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190443_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5149
Sequence Type Exemplar sequence
Representative Public ID T02G5.9 NCBI
Target Description T02G5.9 /REP_DB=WormBase Gene ID /WP=CE04861 /CHR=2 /FEA=Sanger Annotation /DEF=lysyl-tRNA synthetase (ST.LOUIS) SW:Q22099 protein_id:AAA82396.1
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_001027133(11), NM_063052(11), NM_063053(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027133 NCBI Caenorhabditis elegans lysyl (K) tRNA Synthetase family member (krs-1) (krs-1) mRNA, complete cds. 11/11 None
NM_063052 NCBI Caenorhabditis elegans lysyl (K) tRNA Synthetase family member (krs-1) (krs-1) mRNA, complete cds. 11/11 None
NM_063053 NCBI Caenorhabditis elegans lysyl (K) tRNA Synthetase family member (krs-1) (krs-1) mRNA, complete cds. 11/11 None
SNAP00000014282 ENSEMBL cdna:SNAP chromosome:CEL140:II:7070321:7072319:-1 11/11 None
GENEFINDER00000014302 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7070321:7072319:-1 11/11 None
T02G5.9a.1 ENSEMBL cdna:known chromosome:CEL140:II:7070117:7072345:-1 gene:T02G5.9 11/11 None
T02G5.9a.2 ENSEMBL cdna:known chromosome:CEL140:II:7070117:7072347:-1 gene:T02G5.9 11/11 None
T02G5.9b ENSEMBL cdna:known chromosome:CEL140:II:7070321:7072345:-1 gene:T02G5.9 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
chrII:7070316-7072315(-) 100.0 100.0
Public Domain and Genome References
Ensembl T02G5.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_495454 lysyl (K) tRNA Synthetase family member (krs-1) [Caenorhabditis elegans] gb|AAK68395.1| Lysyl (k) trna synthetase protein 1, isoform b [Caenorhabditis elegans] 0.0
blast NP_495453 lysyl (K) tRNA Synthetase family member (krs-1) [Caenorhabditis elegans] gb|AAA82396.1| Lysyl (k) trna synthetase protein 1, isoform a [Caenorhabditis elegans] sp|Q22099|SYK_CAEEL Lysyl-tRNA synthetase (Lysine--tRNA ligase) (LysRS) 0.0
blast NP_001022304 lysyl (K) tRNA Synthetase family member (krs-1) [Caenorhabditis elegans] gb|AAX88810.1| Lysyl (k) trna synthetase protein 1, isoform c [Caenorhabditis elegans] 0.0
blast CAE56901 Hypothetical protein CBG24742 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004365 EMBL-EBI OB-fold nucleic acid binding domain 1.2E-18
Pfam IPR004364 EMBL-EBI tRNA synthetase, class II (D, K and N) 1.0E-126
Pfam IPR004365 EMBL-EBI OB-fold nucleic acid binding domain 1.2E-18
Pfam IPR004364 EMBL-EBI tRNA synthetase, class II (D, K and N) 1.0E-126
Pfam IPR004365 EMBL-EBI OB-fold nucleic acid binding domain 1.2E-18
Pfam IPR004364 EMBL-EBI tRNA synthetase, class II (D, K and N) 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:190443_S_AT
tcgactttacaccaccattcaagagagttcatatgtacgatggactcgcagagaaactcg
gagctactctcccagatccatctactttgcacacggaagaagctcgtgaagttttcgaca
agctgtgccgtgacaacaatgtggattgctctgccccacgtacaacggctcgccttcttg
acaaactcgttggagagtacctcgagagcacatttatctcgccaaccttcctcatcggac
atccacaaatcatgtcaccactcgccaagtggcatcgttccatccctggacttaccgagc
gcttcgagttgtttgcggtgactcgcgaaatcgccaacgcgtacactgagttgaatgatc
ctattactcaacgtcaacgcttcgaacaacaagccaaggacaaggatgctggagatgatg
aggctcaaatgatcgatgaaacattctgcaacgctttggaatacggacttccaccaactg
gaggatggggaatgggaatcgatcgtctctccatgatccttactgataacaacaacatca
aggaagtccttcttttcccagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGACTTTACACCACCATTCAAGAG 34 603 1106 Antisense
GAAGTTTTCGACAAGCTGTGCCGTG 427 337 1213 Antisense
AACAATGTGGATTGCTCTGCCCCAC 101 135 1240 Antisense
CTTCCTCATCGGACATCCACAAATC 604 219 1332 Antisense
ATGTCACCACTCGCCAAGTGGCATC 7 49 1357 Antisense
GACTTACCGAGCGCTTCGAGTTGTT 705 369 1394 Antisense
GTTTGCGGTGACTCGCGAAATCGCC 214 451 1416 Antisense
GAAATCGCCAACGCGTACACTGAGT 194 361 1432 Antisense
GATCCTATTACTCAACGTCAACGCT 654 413 1462 Antisense
ATGGGAATCGATCGTCTCTCCATGA 698 49 1597 Antisense
TCAAGGAAGTCCTTCTTTTCCCAGC 106 633 1643 Antisense
Sequence Source Affymetrix Proprietary Database