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[190816_at] glutamate decarboxylase

Description B0222.4 /REP_DB=WormBase Gene ID /WP=CE06695 /TR=Q17456 /GB=AAA92321.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=glutamate decarboxylase
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_high_8_8 > 04      6grp_highest_nonorm > 92      6grp_total > 48      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 342
1 2 3 4 range
A 217.2
(-1.5)
P 		131.4
(-3)
P 		142.4
(-2.8)
A 		467.1
(3)
P 		336
B 284
(-0.2)
P 		140.5
(-3)
A 		146.7
(-2.9)
A 		443.7
(3)
P 		303
C 263
(-0.1)
P 		124.8
(-3)
A 		149.4
(-2.5)
P 		410.8
(3)
P 		286
avr 254.7
(-0.6) 		132.2
(-3) 		146.2
(-2.7) 		440.5
(3) 		308

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 576
1 2 3 4 5 6 range
A 661.1
(2.5)
P 		298.5
(-1.3)
P 		132.2
(-3)
P 		246.9
(-1.8)
P 		218.6
(-2.1)
P 		707.7
(3)
P 		576
B 692.3
(3)
P 		231
(-2.4)
P 		181.9
(-3)
P 		231.8
(-2.4)
P 		225
(-2.5)
P 		694.6
(3)
P 		513
C 686.1
(3)
P 		232.2
(-2.3)
P 		208.9
(-2.5)
P 		176.7
(-2.9)
P 		167.7
(-3)
P 		543.5
(1.3)
P 		518
avr 679.8
(3) 		253.9
(-2.1) 		174.3
(-3) 		218.5
(-2.5) 		203.8
(-2.6) 		648.6
(2.6) 		506
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 79.1
(3)
P 		28.5
(-3)
P 		37.2
(-2)
A 		68.4
(1.7)
P 		51
B 90.6
(2.6)
P 		34.7
(-2.9)
A 		34
(-3)
A 		94.6
(3)
P 		61
C 87.1
(3)
P 		35.9
(-3)
A 		52.1
(-1.1)
P 		69.3
(0.9)
P 		51
avr 85.6
(3) 		33
(-3) 		41.1
(-2.1) 		77.4
(2.1) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 230
1 2 3 4 5 6 range
A 121.9
(0.9)
P 		106.2
(0.2)
P 		28.8
(-3)
P 		62.6
(-1.6)
P 		66
(-1.4)
P 		172.3
(3)
P 		144
B 240.9
(2.5)
P 		76.9
(-2.1)
P 		44.2
(-3)
P 		61.4
(-2.5)
P 		91.4
(-1.7)
P 		259
(3)
P 		215
C 254.3
(3)
P 		70.9
(-2)
P 		53.2
(-2.5)
P 		35.5
(-3)
P 		54.3
(-2.5)
P 		182
(1)
P 		219
avr 205.7
(3) 		84.7
(-1.4) 		42.1
(-3) 		53.2
(-2.6) 		70.6
(-2) 		204.4
(3) 		164
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190816_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12118
Sequence Type Exemplar sequence
Representative Public ID B0222.4 NCBI
Target Description B0222.4 /REP_DB=WormBase Gene ID /WP=CE06695 /TR=Q17456 /GB=AAA92321.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=glutamate decarboxylase
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_072971(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072971 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-38) (tag-38) mRNA, complete cds. 11/11 None
SNAP00000023006 ENSEMBL cdna:SNAP chromosome:CEL140:V:9147340:9149479:-1 11/11 None
GENEFINDER00000023014 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9147340:9149479:-1 11/11 None
B0222.4 ENSEMBL cdna:known chromosome:CEL140:V:9147222:9149485:-1 gene:B0222.4 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
chrV:9147340-9149480(-) 100.0 100.0
Public Domain and Genome References
Gene Title glutamate decarboxylase
Gene Symbol tag-38
Ensembl B0222.4
Entrez Gene 181859 Entrez gene
SwissProt Q17456 EMBL-EBI
WormBase CE06695 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8237 metallopeptidase activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
16831 carboxy-lyase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA92321 Temporarily assigned gene name protein 38 [Caenorhabditis elegans] ref|NP_505372.1| Temporarily Assigned Gene name family member (tag-38) [Caenorhabditis elegans] 0.0
blast CAE72113 Hypothetical protein CBG19207 [Caenorhabditis briggsae] 0.0
blast XP_694140 PREDICTED: similar to sphingosine phosphate lyase 1 [Danio rerio] ref|XP_693742.1| PREDICTED: similar to sphingosine phosphate lyase 1 [Danio rerio] 1.0E-126
Protein Domains
Database ID Description E-Value
Pfam IPR002129 EMBL-EBI Pyridoxal-dependent decarboxylase 1.5E-4
Pfam IPR002129 EMBL-EBI Pyridoxal-dependent decarboxylase 3.2E-15
Sequence
Target Sequence 
>C. ELEGANS:190816_AT
gtcacaaatacggactcgctccaaaggggtcatcagttgttctttatcgcaataaggaac
ttcttcataatcagtacttctgtgatgctgattggcaaggaggtatctatgcatcggcta
ctatggaaggatcacgcgctgggcacaacattgcactttgctgggccgcaatgctttatc
acgctcaggaaggatacaaggccaatgctagaaagattgttgacactacaagaaagatta
gaaatggactttcaaacattaagggaatcaaattacaagggccaagtgatgtttgtattg
ttagctggacaaccaatgatggagttgaactctacagattccataacttcatgaaggaaa
aacattggcaactgaatggacttcaattcccagctggagttcatatcatggtcactatga
atcatactcatcctggactcgctgaagctttcgtcgccgattgcagagctgcagttgagt
ttgtcaaaagccacaaaccatcggaatccgacaagacaagtgaagcagccatctacggac
ttgctcaaagtattccagaccgatcgcttgttcacgagtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCACAAATACGGACTCGCTCCAAA 244 465 1019 Antisense
GGGGTCATCAGTTGTTCTTTATCGC 29 499 1044 Antisense
GGAGGTATCTATGCATCGGCTACTA 245 517 1117 Antisense
GGCTACTATGGAAGGATCACGCGCT 5 537 1134 Antisense
GCACAACATTGCACTTTGCTGGGCC 102 317 1161 Antisense
CCGCAATGCTTTATCACGCTCAGGA 334 263 1184 Antisense
GACTTCAATTCCCAGCTGGAGTTCA 234 365 1397 Antisense
TCGTCGCCGATTGCAGAGCTGCAGT 259 603 1469 Antisense
AAGCCACAAACCATCGGAATCCGAC 311 109 1506 Antisense
CAAGTGAAGCAGCCATCTACGGACT 26 185 1535 Antisense
CAGACCGATCGCTTGTTCACGAGTT 458 205 1574 Antisense
Sequence Source Affymetrix Proprietary Database