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[189491_at] amidotransferase

Description C39B5.6 /REP_DB=WormBase Gene ID /WP=CE23581 /TR=Q9N5X5 /GB=AAF39770.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=amidotransferase
Cluster 6grp_total > 94      4grp_total > 52      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 338
1 2 3 4 range
A 421.5
(3)
P 		250.4
(-1)
M 		318.5
(0.6)
A 		162.1
(-3)
A 		259
B 204.4
(-2.5)
A 		461.7
(3)
A 		188.6
(-2.9)
A 		183.4
(-3)
A 		278
C 341.2
(1.4)
A 		422
(3)
P 		420.2
(3)
A 		123.4
(-3)
P 		299
avr 322.4
(1.5) 		378
(3) 		309.1
(1.1) 		156.3
(-3) 		222

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 260
1 2 3 4 5 6 range
A 247
(0.3)
A 		202.1
(-1.4)
M 		161.1
(-3)
A 		212.9
(-1)
A 		318
(3)
M 		200.5
(-1.5)
P 		157
B 159.4
(-2.7)
P 		174.4
(-2.4)
A 		148.3
(-3)
P 		238.2
(-0.9)
P 		348.3
(1.7)
M 		404.6
(3)
P 		256
C 214.2
(-0.6)
M 		227.9
(-0.1)
A 		256.4
(0.8)
A 		168
(-2.2)
A 		318.7
(3)
M 		145
(-3)
P 		174
avr 206.9
(-2.2) 		201.5
(-2.4) 		188.6
(-3) 		206.4
(-2.2) 		328.3
(3) 		250
(-0.4) 		140
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 133
1 2 3 4 range
A 153.5
(3)
P 		54.4
(-1.6)
M 		83.3
(-0.2)
A 		23.7
(-3)
A 		130
B 65.2
(-0.9)
A 		114
(3)
A 		43.7
(-2.6)
A 		39.1
(-3)
A 		75
C 112.9
(1.4)
A 		121.3
(1.8)
P 		146.5
(3)
A 		20.8
(-3)
P 		126
avr 110.5
(3) 		96.6
(2) 		91.2
(1.6) 		27.9
(-3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 45.5
(-2)
A 		71.9
(0.6)
M 		35.1
(-3)
A 		54
(-1.1)
A 		96
(3)
M 		48.8
(-1.7)
P 		61
B 55.5
(-2)
P 		58
(-1.9)
A 		36
(-3)
P 		63.1
(-1.6)
P 		141.5
(2.5)
M 		150.9
(3)
P 		115
C 79.4
(0.9)
M 		69.5
(0.1)
A 		65.3
(-0.3)
A 		33.8
(-3)
A 		103.1
(3)
M 		48.5
(-1.7)
P 		69
avr 60.1
(-1.7) 		66.5
(-1.1) 		45.5
(-3) 		50.3
(-2.6) 		113.5
(3) 		82.7
(0.3) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189491_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8242
Sequence Type Exemplar sequence
Representative Public ID C39B5.6 NCBI
Target Description C39B5.6 /REP_DB=WormBase Gene ID /WP=CE23581 /TR=Q9N5X5 /GB=AAF39770.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=amidotransferase
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_065109(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065109 NCBI Caenorhabditis elegans C39B5.6 (amidotransferase) mRNA, complete cds. 11/11 None
SNAP00000012607 ENSEMBL cdna:SNAP chromosome:CEL140:III:2202741:2218560:1 10/11 None
GENEFINDER00000012626 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2202741:2206750:1 11/11 None
C39B5.6 ENSEMBL cdna:known chromosome:CEL140:III:2197994:2206870:1 gene:C39B5.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012608 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2202740-2206750(+) 100.0 100.0
Public Domain and Genome References
Gene Title amidotransferase
Ensembl C39B5.6
Entrez Gene 183325 Entrez gene
SwissProt Q9N5X5 EMBL-EBI
WormBase CE23581 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261307_AT glutamyl-tRNA(Gln) amidotransferase B family protein at
CANINE_2:CFA.19838.1.S1_AT similar to PET112-like cfa
CANINE_2:CFAAFFX.12931.1.S1_AT similar to PET112-like cfa
DROSGENOME1:150484_AT dm
DROSOPHILA_2:1624078_AT dm
CHICKEN:GGA.1823.1.S1_AT similar to PET112-like; PET112 (yeast homolog)-like gga
HG-U95AV2:41456_AT PET112-like (yeast) hs
HU35KSUBA:RC_AA401401_F_AT PET112-like (yeast) hs
HU35KSUBD:RC_AA448188_AT PET112-like (yeast) hs
HG-U133A:204300_AT PET112-like (yeast) hs
HG-U133_PLUS_2:204300_AT PET112-like (yeast) hs
HG-FOCUS:204300_AT PET112-like (yeast) hs
HG-U133A_2:204300_AT PET112-like (yeast) hs
U133_X3P:G4758893_3P_X_AT PET112-like (yeast) hs
U133_X3P:G4758893_3P_AT PET112-like (yeast) hs
U133_X3P:HS.241423.0.S1_3P_AT PET112-like (yeast) hs
HG-U133_PLUS_2:233593_AT PET112-like (yeast) hs
HG-U133B:233593_AT PET112-like (yeast) hs
HG-U133_PLUS_2:231451_S_AT PET112-like (yeast) hs
HG-U133B:231451_S_AT PET112-like (yeast) hs
U133_X3P:HS.119316.0.A1_3P_AT PET112-like (yeast) hs
MG-U74BV2:109063_R_AT PET112-like (yeast) mm
MG-U74BV2:109062_F_AT PET112-like (yeast) mm
MG-U74CV2:136635_AT PET112-like (yeast) mm
MOE430A:1424282_AT PET112-like (yeast) mm
MOUSE430A_2:1424282_AT PET112-like (yeast) mm
MOUSE430_2:1424282_AT PET112-like (yeast) mm
MG-U74CV2:133749_AT PET112-like (yeast) (Pet112l), mRNA mm
MOE430B:1444502_AT PET112-like (yeast) (Pet112l), mRNA mm
MOUSE430_2:1444502_AT PET112-like (yeast) (Pet112l), mRNA mm
MU19KSUBB:TC32801_AT PET112-like (yeast) (Pet112l), mRNA mm
RAE230B:1397856_AT PET112-like (yeast) (predicted) rn
RAT230_2:1397856_AT PET112-like (yeast) (predicted) rn
YEAST_2:1776667_AT Protein required for mitochondrial translation; mutation is functionally complemented by a Bacillus subtilis ortholog Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16874 ligase activity inferred from electronic annotation QuickGO AmiGO
16884 carbon-nitrogen ligase activity, with glutamine as amido-N-donor inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF39770 Hypothetical protein C39B5.6 [Caenorhabditis elegans] ref|NP_497510.1| C39B5.6 [Caenorhabditis elegans] 0.0
blast AAF39765 Hypothetical protein C39B5.5 [Caenorhabditis elegans] ref|NP_497511.1| C39B5.5 [Caenorhabditis elegans] 0.0
blast AAF39770 Hypothetical protein C39B5.6 [Caenorhabditis elegans] ref|NP_497510.1| C39B5.6 [Caenorhabditis elegans] 1.0E-162
blast CAB61137 Hypothetical protein Y51H4A.5 [Caenorhabditis elegans] ref|NP_502962.1| Y51H4A.5 [Caenorhabditis elegans] 1.0E-146
blast CAE69088 Hypothetical protein CBG15106 [Caenorhabditis briggsae] 5.0E-83
blast AAF56239 CG5463-PA [Drosophila melanogaster] ref|NP_651217.2| CG5463-PA [Drosophila melanogaster] 2.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR006075 EMBL-EBI GatB N-terminal region 7.4E-40
Pfam IPR006107 EMBL-EBI GatB central domain 3.6E-13
Pfam IPR002921 EMBL-EBI Lipase, class 3 2.1E-64
Sequence
Target Sequence 
>C. ELEGANS:189491_AT
aacccgagctgctgagcttcgtaaaacgttgtatacgatacaaggcacctacagtaaccc
cagtcgacatactgtattggatgaaagagctgaaaactgttatgcaaagatcaaaagcca
attatccacctcaaagcgaattcttcgcccgtcaattcaccacccttctcaaattctcat
cagagcaccgtctaactcgcctgcgtctcctcgatcttctacgtcactatgcgactgatg
atgacgtcatggccggcgagctggaaattttaatcgaagaaaatcgatattggagaatac
gggcgccggcggaaatcgacgaaatcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCCGAGCTGCTGAGCTTCGTAAA 707 145 584 Antisense
GATACAAGGCACCTACAGTAACCCC 288 423 620 Antisense
GTAACCCCAGTCGACATACTGTATT 579 461 637 Antisense
GATCAAAAGCCAATTATCCACCTCA 543 421 692 Antisense
AAAGCGAATTCTTCGCCCGTCAATT 480 121 716 Antisense
TCTCATCAGAGCACCGTCTAACTCG 349 609 758 Antisense
GATCTTCTACGTCACTATGCGACTG 647 419 796 Antisense
GCGACTGATGATGACGTCATGGCCG 506 287 814 Antisense
GTCATGGCCGGCGAGCTGGAAATTT 533 465 829 Antisense
ATTGGAGAATACGGGCGCCGGCGGA 322 3 872 Antisense
GCGCCGGCGGAAATCGACGAAATCG 516 285 886 Antisense
Sequence Source Affymetrix Proprietary Database