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[173515_s_at]

Description C62806 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y87G2A.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C62806 /WB_GENE_ID=Y87G2A.5 /WP=CE24685 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk295e5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 17      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 50      6grp_total > 06      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 976
1 2 3 4 range
A 889.3
(2.9)
P 		890.7
(3)
P 		896
(3)
P 		245.2
(-3)
P 		651
B 760.2
(0.3)
P 		813.5
(0.7)
P 		1118.5
(3)
P 		315.7
(-3)
P 		803
C 1026.8
(1.7)
P 		987.6
(1.5)
P 		1221.3
(3)
P 		309.2
(-3)
P 		912
avr 892.1
(1.6) 		897.3
(1.6) 		1078.6
(3) 		290
(-3) 		789

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 737
1 2 3 4 5 6 range
A 661.9
(3)
P 		636.2
(2.5)
P 		376.5
(-3)
P 		442.5
(-1.6)
P 		434.2
(-1.8)
P 		399.8
(-2.5)
P 		285
B 594.1
(3)
P 		537.7
(1.8)
P 		426.6
(-0.6)
P 		376.3
(-1.6)
P 		312.4
(-3)
P 		322.6
(-2.8)
P 		282
C 1035.8
(3)
P 		420.7
(-2)
P 		457.4
(-1.7)
P 		393.5
(-2.2)
P 		555.9
(-0.9)
P 		299.3
(-3)
P 		737
avr 763.9
(3) 		531.5
(-0.3) 		420.2
(-1.9) 		404.1
(-2.1) 		434.2
(-1.7) 		340.6
(-3) 		423
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 390
1 2 3 4 range
A 323.8
(3)
P 		193.3
(0.3)
P 		234.2
(1.1)
P 		35.9
(-3)
P 		288
B 242.4
(2.5)
P 		200.9
(1.2)
P 		259.2
(3)
P 		67.3
(-3)
P 		192
C 339.9
(1.6)
P 		283.9
(0.7)
P 		425.6
(3)
P 		52.1
(-3)
P 		374
avr 302
(2.9) 		226
(1.1) 		306.3
(3) 		51.8
(-3) 		255

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 305
1 2 3 4 5 6 range
A 122
(-1.3)
P 		226.3
(3)
P 		82
(-3)
P 		112.2
(-1.7)
P 		131
(-1)
P 		97.3
(-2.4)
P 		144
B 206.7
(3)
P 		179
(1.4)
P 		103.6
(-2.8)
P 		99.7
(-3)
P 		126.9
(-1.5)
P 		120.3
(-1.8)
P 		107
C 383.9
(3)
P 		128.4
(-2)
P 		116.4
(-2.3)
P 		79.1
(-3)
P 		179.9
(-1)
P 		100.2
(-2.6)
P 		305
avr 237.5
(3) 		177.9
(0.5) 		100.7
(-2.8) 		97
(-3) 		145.9
(-0.9) 		105.9
(-2.6) 		141
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173515_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23138
Sequence Type Exemplar sequence
Representative Public ID C62806 NCBI
Target Description C62806 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y87G2A.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C62806 /WB_GENE_ID=Y87G2A.5 /WP=CE24685 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk295e5 : 5prime 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_060976(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060976 NCBI Caenorhabditis elegans Valyl tRNA Synthetase family member (vrs-2) (vrs-2) mRNA, complete cds. 11/11 None
SNAP00000019588 ENSEMBL cdna:SNAP chromosome:CEL140:I:13556591:13567463:-1 11/11 None
GENEFINDER00000019611 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13556591:13561307:-1 11/11 None
Y87G2A.5 ENSEMBL cdna:known chromosome:CEL140:I:13555788:13567480:-1 gene:Y87G2A.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:13556522-13567395(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol vrs-2
Ensembl Y87G2A.5
Entrez Gene 173224 Entrez gene
SwissProt Q9U1Q4 EMBL-EBI
WormBase CE24685 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260780_AT valyl-tRNA synthetase / valine--tRNA ligase (VALRS) at
CANINE:1592352_AT similar to Valyl-tRNA synthetase 2 (Valine--tRNA ligase 2) (ValRS 2) (G7a protein) cfa
CANINE_2:CFAAFFX.1878.1.S1_AT similar to Valyl-tRNA synthetase 2 (Valine--tRNA ligase 2) (ValRS 2) (G7a protein) cfa
DROSOPHILA_2:1638259_S_AT Valyl-tRNA synthetase dm
DROSGENOME1:141603_AT Valyl-tRNA synthetase dm
HG-FOCUS:201797_S_AT valyl-tRNA synthetase hs
HG-U133A:201797_S_AT valyl-tRNA synthetase hs
HG-U133_PLUS_2:201797_S_AT valyl-tRNA synthetase hs
HG-U133A_2:201797_S_AT valyl-tRNA synthetase hs
HG-U133A:201796_S_AT valyl-tRNA synthetase hs
HG-U133_PLUS_2:201796_S_AT valyl-tRNA synthetase hs
HG-U133A_2:201796_S_AT valyl-tRNA synthetase hs
HUGENEFL:X59303_S_AT valyl-tRNA synthetase hs
U133_X3P:G5454157_3P_A_AT valyl-tRNA synthetase hs
U133_X3P:HS.159637.0.S1_3P_A_AT valyl-tRNA synthetase hs
HG-U95AV2:40414_AT valyl-tRNA synthetase hs
HU35KSUBA:H20427_AT Valyl-tRNA synthetase hs
MU11KSUBB:MSA.15493.0_F_AT valyl-tRNA synthetase 2 mm
MU11KSUBB:MSA.15231.0_S_AT valyl-tRNA synthetase 2 mm
MU11KSUBB:MSA.24998.0_F_AT valyl-tRNA synthetase 2 mm
MU11KSUBB:MSA.12951.0_AT valyl-tRNA synthetase 2 mm
MG-U74AV2:97894_AT valyl-tRNA synthetase 2 mm
MOE430A:1448472_AT valyl-tRNA synthetase 2 mm
MOUSE430A_2:1448472_AT valyl-tRNA synthetase 2 mm
MOUSE430_2:1448472_AT valyl-tRNA synthetase 2 mm
MU19KSUBB:TC27981_AT Valyl-tRNA synthetase (G7a) mm
MU19KSUBB:TC29567_F_AT Valyl-tRNA synthetase (G7a) mm
RG-U34A:M98327_AT valyl-tRNA synthetase 2 rn
RG-U34C:RC_AI070511_AT valyl-tRNA synthetase 2 rn
RAE230A:1372578_AT valyl-tRNA synthetase 2 rn
RAT230_2:1372578_AT valyl-tRNA synthetase 2 rn
RAE230B:1385661_AT valyl-tRNA synthetase 2 rn
RAT230_2:1385661_AT valyl-tRNA synthetase 2 rn
YEAST_2:1780055_AT Mitochondrial and cytoplasmic valyl-tRNA synthetase Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6418 tRNA aminoacylation for protein translation inferred from electronic annotation QuickGO AmiGO
6438 valyl-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
4832 valine-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 CAB60428 Hypothetical protein Y87G2A.5 [Caenorhabditis elegans] ref|NP_493377.1| Valyl tRNA Synthetase family member (vrs-2) [Caenorhabditis elegans] 0.0
blast CAE63549 Hypothetical protein CBG08035 [Caenorhabditis briggsae] 0.0
blast T27465 hypothetical protein Y87G2A.m - Caenorhabditis elegans 0.0
blast T27463 hypothetical protein Y87G2A.k - Caenorhabditis elegans 1.0E-160
Protein Domains
Database ID Description E-Value
Pfam IPR002300 EMBL-EBI Aminoacyl-tRNA synthetase, class Ia 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000019611 1 67-89
Sequence
Target Sequence 
>C. ELEGANS:173515_S_AT
ttctccattaatgccattcatctcagaagaattatggcaacgtatgccacgtctcgacga
ttcggattacacgtcaccatcgattattgttgcacaatatccattaacacagaaatatga
aaaatatcaaaatgagaagctggaggctgcattcgaatttgcacaggagctcattggaaa
agtccgatcgttgagagctgattatgatttgaagaagactaagattactgtgcaaattct
ctccgaaacaccagaagacgagtcaatgctcaatgatatatctgcagtgataaccacctt
aacattcagtgaaaaagtctcaattctcaataaatgtgaatccgataaaattgaaaaagg
ttctgcacatattgcttgtggaggacgttgtcaagtatacatcaatttgactggaattat
cgatgttccaaaagaaatcgaaaagctcggagccaaattgcaaaagaatcagatttctgt
gaaaaagattggagatattcaatcgagtgctgattatgagcaaaaagttccagttgatat
tcgtgctctgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTCCATTAATGCCATTCATCTCA 698 691 2536 Antisense
GTATGCCACGTCTCGACGATTCGGA 549 455 2577 Antisense
ACGATTCGGATTACACGTCACCATC 172 93 2592 Antisense
GTCACCATCGATTATTGTTGCACAA 671 465 2608 Antisense
AAGCTGGAGGCTGCATTCGAATTTG 419 147 2672 Antisense
GAATTTGCACAGGAGCTCATTGGAA 548 325 2690 Antisense
AAAGTCCGATCGTTGAGAGCTGATT 587 121 2714 Antisense
GCAGTGATAACCACCTTAACATTCA 485 311 2819 Antisense
AAAAGGTTCTGCACATATTGCTTGT 554 131 2890 Antisense
ATATTGCTTGTGGAGGACGTTGTCA 160 19 2904 Antisense
GTTCCAGTTGATATTCGTGCTCTGG 388 441 3062 Antisense
Sequence Source Affymetrix Proprietary Database