[Home] | [Total List]

[175559_s_at]

Description AV199512_rc /REP_DB=TREMBL Accession /GB=AV199512 /CHR=1 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk547e10 : 3prime end, single read.
Cluster 6grp_total > 34      4grp_total > 21      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 43.2
(-2.4)
P 		39.1
(-2.9)
A 		38
(-3)
A 		88.9
(3)
A 		51
B 53.7
(3)
P 		44.9
(1.1)
P 		25.7
(-3)
A 		27.1
(-2.7)
A 		28
C 59.8
(0.5)
P 		52.9
(-3)
A 		64.7
(3)
P 		54.2
(-2.3)
A 		12
avr 52.2
(1.1) 		45.6
(-1.8) 		42.8
(-3) 		56.7
(3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 50.2
(2.6)
P 		51.8
(3)
A 		37.9
(-0.6)
A 		40.8
(0.1)
A 		28.8
(-3)
A 		31.5
(-2.3)
A 		23
B 63.1
(3)
P 		15.8
(-3)
A 		50.8
(1.4)
A 		16.8
(-2.9)
A 		24.4
(-1.9)
A 		20.5
(-2.4)
A 		47
C 47.4
(2.4)
A 		44.8
(2.1)
A 		43.8
(2)
A 		48.3
(2.6)
A 		5.4
(-3)
A 		51.7
(3)
M 		46
avr 53.6
(3) 		37.5
(0.2) 		44.2
(1.3) 		35.3
(-0.2) 		19.5
(-3) 		34.6
(-0.3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 15.7
(3)
P 		8.5
(-3)
A 		9.9
(-1.8)
A 		13
(0.8)
A 		7
B 17.1
(3)
P 		11.1
(-0.2)
P 		6
(-2.9)
A 		5.8
(-3)
A 		11
C 19.8
(1.8)
P 		15.2
(-0.3)
A 		22.6
(3)
P 		9.1
(-3)
A 		14
avr 17.5
(3) 		11.6
(-1.3) 		12.8
(-0.4) 		9.3
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 9.3
(-2.1)
P 		18.4
(3)
A 		8.3
(-2.7)
A 		10.4
(-1.5)
A 		8.7
(-2.4)
A 		7.7
(-3)
A 		11
B 22
(3)
P 		5.2
(-2.7)
A 		12.3
(-0.3)
A 		4.4
(-3)
A 		9.9
(-1.1)
A 		7.7
(-1.9)
A 		18
C 17.6
(3)
A 		13.7
(1.5)
A 		11.1
(0.5)
A 		9.7
(-0)
A 		1.8
(-3)
A 		17.3
(2.9)
M 		16
avr 16.3
(3) 		12.4
(0.5) 		10.6
(-0.6) 		8.2
(-2.1) 		6.8
(-3) 		10.9
(-0.4) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175559_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28215
Sequence Type Exemplar sequence
Representative Public ID AV199512 NCBI
Target Description AV199512_rc /REP_DB=TREMBL Accession /GB=AV199512 /CHR=1 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk547e10 : 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_170952(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170952 NCBI Caenorhabditis elegans Y105E8A.20 (Y105E8A.20) mRNA, complete cds. 11/11 A 
SNAP00000013344 ENSEMBL cdna:SNAP chromosome:CEL140:I:14485037:14506409:-1 11/11 None
GENEFINDER00000013498 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14495083:14506409:-1 11/11 None
Y105E8A.20.1 ENSEMBL cdna:known chromosome:CEL140:I:14495008:14503370:-1 gene:Y105E8A.20 11/11 None
Y105E8A.20.2 ENSEMBL cdna:known chromosome:CEL140:I:14495008:14503372:-1 gene:Y105E8A.20 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:14503019-14503294(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y105E8A.20
Entrez Gene 173312 Entrez gene
SwissProt Q8WQA1 EMBL-EBI
WormBase CE34219 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18727_AT methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) at
ATH1-121501:251807_AT methionyl-tRNA synthetase / methionine--tRNA ligase / MetRS (cpMetRS) at
CANINE_2:CFAAFFX.809.1.S1_AT similar to methionine-tRNA synthetase 2 precursor cfa
DROSOPHILA_2:1632235_AT Methionyl-tRNA synthetase dm
DROSGENOME1:152528_AT Methionyl-tRNA synthetase dm
DROSGENOME1:149885_AT Methionyl-tRNA synthetase dm
CHICKEN:GGAAFFX.20436.1.S1_AT similar to mitochondrial methionyl-tRNA synthetase gga
HG-U133_PLUS_2:243529_AT methionine-tRNA synthetase 2 (mitochondrial) hs
HG-U133B:243529_AT methionine-tRNA synthetase 2 (mitochondrial) hs
HU35KSUBB:RC_AA045513_AT methionine-tRNA synthetase 2 (mitochondrial) hs
U133_X3P:HS.62587.0.A1_3P_AT methionine-tRNA synthetase 2 (mitochondrial) hs
HG-U95B:55829_AT methionine-tRNA synthetase 2 (mitochondrial) hs
HG-U95C:66266_R_AT methionine-tRNA synthetase 2 (mitochondrial) hs
MU11KSUBB:MSA.25724.0_S_AT methionine-tRNA synthetase 2 (mitochondrial) mm
MG-U74BV2:113817_AT methionine-tRNA synthetase 2 (mitochondrial) mm
YEAST_2:1774442_AT Mitochondrial methionyl-tRNA synthetase (MetRS), functions as a monomer in mitochondrial protein synthesis; functions similarly to cytoplasmic MetRS although the cytoplasmic form contains a zinc-binding domain not found in Msm1p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6431 methionyl-tRNA aminoacylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4825 methionine-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 CAD21672 Hypothetical protein Y105E8A.20 [Caenorhabditis elegans] ref|NP_740948.2| Y105E8A.20 [Caenorhabditis elegans] 0.0
blast BAC76732.1 methionyl-tRNA synthetase (mitochondrial) [Caenorhabditis elegans] 0.0
blast CAD21668 Hypothetical protein Y105E8A.19 [Caenorhabditis elegans] ref|NP_740947.2| Y105E8A.19 [Caenorhabditis elegans] dbj|BAC76736.1| tyrosyl-tRNA synthetase (cytoplasmic) [Caenorhabditis elegans] 0.0
blast CAE72594 Hypothetical protein CBG19783 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002305 EMBL-EBI Aminoacyl-tRNA synthetase, class Ib 9.8E-56
Sequence
Target Sequence 
>C. ELEGANS:175559_S_AT
gtgacgtggcacatcgatggaatcgtctgaaacaccccggagctcaggcacaattctcga
ttggaaccgatgagcacggtagtaagtttccaagcagctctggcggcaaaatcgactcca
aaacagttttgtgatcgggtttcttctaaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGACGTGGCACATCGATGGAATCG 73 483 42 Antisense
CGATGGAATCGTCTGAAACACCCCG 236 249 56 Antisense
CGGAGCTCAGGCACAATTCTCGATT 328 243 79 Antisense
AGCTCAGGCACAATTCTCGATTGGA 354 79 82 Antisense
GGCACAATTCTCGATTGGAACCGAT 379 535 88 Antisense
ACAATTCTCGATTGGAACCGATGAG 421 115 91 Antisense
TTTCCAAGCAGCTCTGGCGGCAAAA 226 667 128 Antisense
GCAGCTCTGGCGGCAAAATCGACTC 598 313 135 Antisense
GCTCTGGCGGCAAAATCGACTCCAA 654 299 138 Antisense
ACAGTTTTGTGATCGGGTTTCTTCT 623 105 164 Antisense
TTTGTGATCGGGTTTCTTCTAAATT 366 663 169 Antisense
Sequence Source Affymetrix Proprietary Database