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[189737_at] glutamate synthase

Description W07E11.1 /REP_DB=WormBase Gene ID /WP=CE02372 /TR=Q22275 /GB=CAA90032.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=glutamate synthase
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 78      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 96      6grp_total > 68      4grp_total > 02      6grp_highest_sub > Da      6grp_high1_sub > Cu      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 491
1 2 3 4 range
A 553
(-0)
P 		434.7
(-3)
P 		500.4
(-1.3)
P 		673.4
(3)
P 		239
B 504.1
(-3)
P 		561
(-2.2)
P 		550.4
(-2.3)
P 		925.6
(3)
P 		422
C 496.6
(-2.7)
P 		565.1
(-1.2)
P 		483.3
(-3)
P 		759.6
(3)
P 		276
avr 517.9
(-2.9) 		520.3
(-2.8) 		511.4
(-3) 		786.2
(3) 		275

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 528
1 2 3 4 5 6 range
A 780.3
(-2.1)
P 		737.2
(-2.5)
P 		697.4
(-3)
P 		740.8
(-2.5)
P 		839.4
(-1.4)
P 		1221
(3)
P 		524
B 802.8
(-1.6)
P 		707.8
(-3)
P 		723.7
(-2.8)
P 		802.1
(-1.6)
P 		752.8
(-2.4)
P 		1125.6
(3)
P 		418
C 939.3
(1.3)
P 		702.2
(-2.8)
P 		1024.7
(2.8)
P 		692.7
(-3)
P 		987.7
(2.1)
P 		1038.6
(3)
P 		346
avr 840.8
(-1.2) 		715.7
(-3) 		815.3
(-1.6) 		745.2
(-2.6) 		860
(-0.9) 		1128.4
(3) 		413
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 201.3
(3)
P 		94.4
(-3)
P 		130.8
(-1)
P 		98.6
(-2.8)
P 		107
B 160.8
(-0.1)
P 		138.6
(-2)
P 		127.5
(-3)
P 		197.2
(3)
P 		70
C 164.4
(2.4)
P 		162.5
(2.1)
P 		168.4
(3)
P 		128.1
(-3)
P 		40
avr 175.5
(3) 		131.8
(-3) 		142.2
(-1.6) 		141.3
(-1.7) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 280
1 2 3 4 5 6 range
A 143.8
(-3)
P 		262.2
(1.6)
P 		151.9
(-2.7)
P 		187.9
(-1.3)
P 		253.3
(1.3)
P 		297.3
(3)
P 		154
B 279.3
(-0.5)
P 		235.6
(-1.5)
P 		175.7
(-3)
P 		212.5
(-2.1)
P 		305.8
(0.2)
P 		419.7
(3)
P 		244
C 348.1
(3)
P 		214.3
(-0.8)
P 		260.8
(0.5)
P 		139.3
(-3)
P 		319.6
(2.2)
P 		347.7
(3)
P 		209
avr 257.1
(-0.4) 		237.4
(-1) 		196.1
(-2.4) 		179.9
(-3) 		292.9
(0.9) 		354.9
(3) 		175
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189737_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16567
Sequence Type Exemplar sequence
Representative Public ID W07E11.1 NCBI
Target Description W07E11.1 /REP_DB=WormBase Gene ID /WP=CE02372 /TR=Q22275 /GB=CAA90032.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=glutamate synthase
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_077292(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077292 NCBI Caenorhabditis elegans W07E11.1 (W07E11.1) mRNA, complete cds. 11/11 None
GENEFINDER00000021217 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10095484:10103823:1 11/11 None
SNAP00000021206 ENSEMBL cdna:SNAP chromosome:CEL140:X:10098798:10103823:1 11/11 None
W07E11.1 ENSEMBL cdna:known chromosome:CEL140:X:10083935:10103992:1 gene:W07E11.1 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
chrX:10083934-10103823(+) 100.0 100.0
Public Domain and Genome References
Gene Title glutamate synthase
Ensembl W07E11.1
Entrez Gene 181223 Entrez gene
SwissProt Q22275 EMBL-EBI
WormBase CE02372 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248267_AT glutamate synthase (NADH), chloroplast, putative at
DROSOPHILA_2:1629048_S_AT dm
DROSGENOME1:153030_AT dm
YEAST_2:1776998_AT NAD(+)-dependent glutamate synthase (GOGAT), synthesizes glutamate from glutamine and alpha-ketoglutarate; with Gln1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
6537 glutamate biosynthesis inferred from electronic annotation QuickGO AmiGO
6807 nitrogen compound metabolism inferred from electronic annotation QuickGO AmiGO
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
15036 disulfide oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
15930 glutamate synthase activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
16639 oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90070 Hypothetical protein W07E11.1 [Caenorhabditis elegans] emb|CAA90032.1| Hypothetical protein W07E11.1 [Caenorhabditis elegans] ref|NP_509693.1| W07E11.1 [Caenorhabditis elegans] 0.0
blast CAE58778 Hypothetical protein CBG01975 [Caenorhabditis briggsae] 0.0
blast EAA10819 ENSANGP00000013025 [Anopheles gambiae str. PEST] ref|XP_316385.2| ENSANGP00000013025 [Anopheles gambiae str. PEST] 0.0
blast XP_396817 PREDICTED: similar to GA21956-PA [Apis mellifera] 0.0
Protein Domains
Database ID Description E-Value
scop a.1.2.Dihydropyrimidine dehydrogenase, N-terminal domain All alpha proteins; Globin-like; alpha-helical ferredoxin; Dihydropyrimidine dehydrogenase, N-terminal domain 0.0160000007599592
scop a.1.2.Dihydropyrimidine dehydrogenase, N-terminal domain All alpha proteins; Globin-like; alpha-helical ferredoxin; Dihydropyrimidine dehydrogenase, N-terminal domain 0.0140000004321337
Pfam IPR006981 EMBL-EBI Glutamate synthase amidotransferase domain 1.0E-126
Pfam IPR002489 EMBL-EBI Protein of unknown function DUF14 4.9E-80
Pfam IPR006982 EMBL-EBI Glutamate synthase central domain 1.0E-126
Pfam IPR002932 EMBL-EBI Ferredoxin-dependent glutamate synthase 1.0E-126
Pfam IPR006981 EMBL-EBI Glutamate synthase amidotransferase domain 6.5E-14
Pfam IPR002489 EMBL-EBI Protein of unknown function DUF14 4.9E-80
Pfam IPR006982 EMBL-EBI Glutamate synthase central domain 1.0E-126
Pfam IPR002932 EMBL-EBI Ferredoxin-dependent glutamate synthase 1.0E-126
Pfam IPR002489 EMBL-EBI Protein of unknown function DUF14 4.9E-80
Pfam IPR002932 EMBL-EBI Ferredoxin-dependent glutamate synthase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:189737_AT
gatgcaagactgttggtgctttcgaaattctgccacagccaggaccaaatcgtaagccgg
agaatccatggccagagtggccactcattttccgagtggactatggacacgaggaagcaa
aagagatgactggctccgatccaagaacttactctgtttctactaagcgtttcctcacaa
ctaccaacgccgccggtatcactgttctcactggacttgaaattgtggatgttgaatggg
aaaaggatgacaagggtgcttggaagcttattgagaagaatgagactattcgcacaattg
aatgcgatctctgcattctggctatgggattcgtcgggcccgaaaaatcggtaattgagc
agttgaatctgaaaactgacccaagatccaacattctcactccaaaggacaaatacgatt
ctgatgtggcaaaggtgttcgctgctggagattgtcgtcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCAAGACTGTTGGTGCTTTCGA 384 413 6035 Antisense
GTGCTTTCGAAATTCTGCCACAGCC 607 477 6050 Antisense
GCCACAGCCAGGACCAAATCGTAAG 360 279 6066 Antisense
GTAAGCCGGAGAATCCATGGCCAGA 300 463 6086 Antisense
GCCAGAGTGGCCACTCATTTTCCGA 167 279 6105 Antisense
GACTGGCTCCGATCCAAGAACTTAC 563 375 6162 Antisense
ACTCTGTTTCTACTAAGCGTTTCCT 642 99 6185 Antisense
TATCACTGTTCTCACTGGACTTGAA 109 659 6231 Antisense
ATGCGATCTCTGCATTCTGGCTATG 433 41 6336 Antisense
TCTGGCTATGGGATTCGTCGGGCCC 556 605 6351 Antisense
GTTCGCTGCTGGAGATTGTCGTCGT 537 441 6471 Antisense
Sequence Source Affymetrix Proprietary Database