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[173167_s_at] glutamine synthase

Description AV181844_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181844 /DEF=Caenorhabditis elegans cDNA clone:yk625e10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_high_8_8 > 06      6grp_highest_nonorm > 99      6grp_total > 88      4grp_total > 02      6grp_highest_sub > Da      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 799
1 2 3 4 range
A 126.2
(-3)
P 		140.9
(-2.9)
P 		161.5
(-2.6)
P 		719
(3)
P 		593
B 132
(-3)
P 		136.8
(-2.9)
P 		128.9
(-3)
A 		909.6
(3)
P 		781
C 110.7
(-3)
P 		144.2
(-2.7)
P 		157.6
(-2.6)
P 		901.2
(3)
P 		791
avr 123
(-3) 		140.6
(-2.9) 		149.3
(-2.8) 		843.3
(3) 		720

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6099
1 2 3 4 5 6 range
A 211.3
(-2.9)
P 		110.7
(-3)
P 		257.7
(-2.8)
P 		554
(-2.4)
P 		2961.2
(0.7)
P 		4691.1
(3)
P 		4580
B 145.8
(-3)
P 		117.5
(-3)
P 		289.4
(-2.8)
P 		488.6
(-2.6)
P 		3403.2
(0.3)
P 		6132.4
(3)
P 		6015
C 86.8
(-3)
P 		153.9
(-2.9)
P 		334.1
(-2.8)
P 		592.4
(-2.5)
P 		2593.9
(-0.5)
P 		6185.3
(3)
P 		6099
avr 148
(-3) 		127.4
(-3) 		293.7
(-2.8) 		545
(-2.5) 		2986.1
(0.1) 		5669.6
(3) 		5542
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 45.9
(-1.8)
P 		30.6
(-3)
P 		42.2
(-2.1)
P 		105.2
(3)
P 		75
B 42.1
(-2.6)
P 		33.8
(-2.9)
P 		29.9
(-3)
A 		193.8
(3)
P 		164
C 36.7
(-3)
P 		41.5
(-2.8)
P 		54.9
(-2.1)
P 		152
(3)
P 		115
avr 41.6
(-2.7) 		35.3
(-3) 		42.3
(-2.6) 		150.3
(3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2255
1 2 3 4 5 6 range
A 39
(-3)
P 		39.4
(-3)
P 		56.1
(-2.9)
P 		140.5
(-2.4)
P 		893.6
(1.6)
P 		1142.1
(3)
P 		1103
B 50.7
(-3)
P 		39.1
(-3)
P 		70.3
(-2.9)
P 		129.4
(-2.8)
P 		1382.7
(0.6)
P 		2286.7
(3)
P 		2248
C 32.2
(-3)
P 		47
(-3)
P 		85
(-2.8)
P 		119.1
(-2.7)
P 		839.4
(-0.6)
P 		2070.6
(3)
P 		2038
avr 40.6
(-3) 		41.8
(-3) 		70.5
(-2.9) 		129.7
(-2.7) 		1038.6
(0.3) 		1833.1
(3) 		1793
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173167_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26770
Sequence Type Exemplar sequence
Representative Public ID AV181844 NCBI
Target Description AV181844_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181844 /DEF=Caenorhabditis elegans cDNA clone:yk625e10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_069332(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069332 NCBI Caenorhabditis elegans GLutamiNe synthetase (glutamate-ammonia ligase) family member (gln-6) (gln-6) mRNA, complete cds. 11/11 A 
SNAP00000030228 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9739539:9740829:-1 11/11 None
GENEFINDER00000030237 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9739539:9744958:-1 11/11 None
C28D4.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:9739301:9740872:-1 gene:C28D4.3 11/11 None
C28D4.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:9739423:9740870:-1 gene:C28D4.3 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
chrIV:9739517-9739803(-) 80.33 80.33
Public Domain and Genome References
Gene Title glutamine synthase
Gene Symbol gln-6
Ensembl C28D4.3
Entrez Gene 177808 Entrez gene
SwissProt O02225 EMBL-EBI
WormBase CE08432 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16503_AT glutamine synthetase (GS2) at
ATH1-121501:249710_AT glutamine synthetase (GS2) at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9399 nitrogen fixation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4356 glutamate-ammonia ligase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05127 Hypothetical protein C28D4.3 [Caenorhabditis elegans] ref|NP_501733.1| GLutamiNe synthetase (glutamate-ammonia ligase) family member (gln-6) [Caenorhabditis elegans] 0.0
blast CAB02317 Hypothetical protein F26D10.10 [Caenorhabditis elegans] ref|NP_503065.1| GLutamiNe synthetase (glutamate-ammonia ligase) family member (gln-5) [Caenorhabditis elegans] 0.0
blast CAE72665 Hypothetical protein CBG19879 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008147 EMBL-EBI Glutamine synthetase, beta-Grasp domain 7.9E-32
Pfam IPR008146 EMBL-EBI Glutamine synthetase, catalytic domain 1.2E-93
Pfam IPR008147 EMBL-EBI Glutamine synthetase, beta-Grasp domain 7.9E-32
Pfam IPR008146 EMBL-EBI Glutamine synthetase, catalytic domain 1.2E-93
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 7.5E-114
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 1.5E-100
Sequence
Target Sequence 
>C. ELEGANS:173167_S_AT
aggacatgataatttgcgccgactcactgggcggcatgagaccagtcaagccgaccaatt
ctcctggggaattgctaatcgtgcttgctcagttcgtatcccacgtcaagttgctgatga
aggaagaggatatctcgaagaccgccgtccatcgtcgaattgtgatccatacctggtgac
tgcaatgatcgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGACATGATAATTTGCGCCGACTC 290 55 13 Antisense
CGCCGACTCACTGGGCGGCATGAGA 152 257 29 Antisense
TGGGCGGCATGAGACCAGTCAAGCC 18 553 40 Antisense
AGACCAGTCAAGCCGACCAATTCTC 663 69 51 Antisense
GCCGACCAATTCTCCTGGGGAATTG 105 283 62 Antisense
GGAATTGCTAATCGTGCTTGCTCAG 620 533 80 Antisense
TAATCGTGCTTGCTCAGTTCGTATC 653 635 88 Antisense
TCGTATCCCACGTCAAGTTGCTGAT 32 605 106 Antisense
CGCCGTCCATCGTCGAATTGTGATC 457 257 155 Antisense
GTCGAATTGTGATCCATACCTGGTG 157 475 166 Antisense
ATACCTGGTGACTGCAATGATCGTG 518 23 181 Antisense
Sequence Source Affymetrix Proprietary Database