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[175512_s_at] L-methionine-alpha-deamino-gamma-mercaptomethane lyase

Description AU113188_rc /REP_DB=TREMBL Accession /GB=AU113188 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk704b12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 40      4grp_high_8_8 > 52      6grp_highest_nonorm > 62      6grp_total > 51      4grp_total > 59      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 534
1 2 3 4 range
A 379.6
(1.7)
P 		470.7
(3)
P 		374.1
(1.7)
P 		37.6
(-3)
A 		433
B 482.4
(2)
P 		524.3
(2.5)
P 		565.1
(3)
P 		80.6
(-3)
P 		485
C 334.4
(-0)
P 		500.2
(2.1)
P 		571.5
(3)
P 		103.9
(-3)
A 		468
avr 398.8
(1.5) 		498.4
(2.9) 		503.6
(3) 		74
(-3) 		430

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 751
1 2 3 4 5 6 range
A 420
(-1.3)
P 		460.6
(-1)
P 		956.6
(3)
P 		580.8
(-0)
P 		290.8
(-2.3)
P 		205.7
(-3)
P 		751
B 455.7
(-1.1)
P 		540.4
(-0.3)
P 		884.5
(3)
P 		662.7
(0.9)
P 		263
(-3)
P 		289.3
(-2.7)
P 		622
C 357.4
(-1.4)
P 		553.1
(1.4)
P 		667.2
(3)
P 		650.2
(2.8)
P 		248.2
(-3)
P 		382.5
(-1.1)
P 		419
avr 411
(-1.5) 		518
(-0.4) 		836.1
(3) 		631.2
(0.8) 		267.3
(-3) 		292.5
(-2.7) 		569
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 194
1 2 3 4 range
A 138.2
(3)
P 		102.2
(1.4)
P 		97.8
(1.2)
P 		5.5
(-3)
A 		133
B 153.8
(3)
P 		129.5
(1.9)
P 		130.9
(2)
P 		17.2
(-3)
P 		137
C 110.7
(0.1)
P 		143.8
(1.2)
P 		199.2
(3)
P 		17.5
(-3)
A 		182
avr 134.2
(2.6) 		125.2
(2.2) 		142.6
(3) 		13.4
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 165
1 2 3 4 5 6 range
A 77.4
(-2)
P 		163.8
(1.3)
P 		208.3
(3)
P 		147.3
(0.7)
P 		87.7
(-1.6)
P 		50.1
(-3)
P 		158
B 158.6
(-0.1)
P 		179.9
(1.1)
P 		214.8
(3)
P 		175.5
(0.8)
P 		106.8
(-3)
P 		107.9
(-2.9)
P 		108
C 132.5
(0.5)
P 		168.8
(2.9)
P 		169.8
(3)
P 		130.8
(0.4)
P 		80.3
(-3)
P 		128
(0.2)
P 		90
avr 122.8
(-1.2) 		170.8
(1.5) 		197.6
(3) 		151.2
(0.4) 		91.6
(-3) 		95.3
(-2.8) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175512_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20187
Sequence Type Exemplar sequence
Representative Public ID AU113188 NCBI
Target Description AU113188_rc /REP_DB=TREMBL Accession /GB=AU113188 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk704b12 : 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_060085(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060085 NCBI Caenorhabditis elegans C12C8.2 (C12C8.2) mRNA, complete cds. 10/11 A 
GENEFINDER00000040485 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9335980:9338847:1 10/11 None
SNAP00000040481 ENSEMBL cdna:SNAP chromosome:CEL140:I:9336767:9338847:1 10/11 None
C12C8.2 ENSEMBL cdna:known chromosome:CEL140:I:9335980:9339019:1 gene:C12C8.2 10/11 A 
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:9338272-9338823(+) 100.0 100.0
Public Domain and Genome References
Gene Title L-methionine-alpha-deamino-gamma-mercaptomethane lyase
Ensembl C12C8.2
Entrez Gene 172759 Entrez gene
SwissProt O02215 EMBL-EBI
WormBase CE36100 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:15179_S_AT cystathionine gamma-synthase, chloroplast / O-succinylhomoserine (Thiol)-lyase (CGS) at
ATH1-121501:259279_AT cystathionine gamma-synthase, chloroplast / O-succinylhomoserine (Thiol)-lyase (CGS) at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03873 Hypothetical protein C12C8.2 [Caenorhabditis elegans] ref|NP_492486.2| C12C8.2 [Caenorhabditis elegans] 0.0
blast CAE74315 Hypothetical protein CBG22025 [Caenorhabditis briggsae] 0.0
blast CAE74315 Hypothetical protein CBG22025 [Caenorhabditis briggsae] 1.0E-178
blast CAA04125 methionine gamma-lyase [Trichomonas vaginalis] 5.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR000277 EMBL-EBI Cys/Met metabolism pyridoxal-phosphate-dependent enzymes 1.0E-126
Pfam IPR000277 EMBL-EBI Cys/Met metabolism pyridoxal-phosphate-dependent enzymes 1.0E-126
Pfam IPR000277 EMBL-EBI Cys/Met metabolism pyridoxal-phosphate-dependent enzymes 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:175512_S_AT
aatgcaatcaagcttgttgaggctaagtcttaaactaatcattcatgcagtatctcttgg
tggtactgaatctttaatcgaacatcctctgtcaatgtctcatggtaaacatttacttcg
atatttggatggtccgactgttgcccctggacttctccgatttagcgttggcattgaaaa
tgtggaggatattattggagatttgaatgatgccctcgagaagctttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCAATCAAGCTTGTTGAGGCTA 404 165 23 Antisense
TATCTCTTGGTGGTACTGAATCTTT 636 657 73 Antisense
GAATCTTTAATCGAACATCCTCTGT 214 329 90 Antisense
CATCCTCTGTCAATGTCTCATGGTA 540 211 105 Antisense
GTCTCATGGTAAACATTTACTTCGA 85 471 119 Antisense
ATTTACTTCGATATTTGGATGGTCC 563 15 133 Antisense
TATTTGGATGGTCCGACTGTTGCCC 10 661 144 Antisense
CCTGGACTTCTCCGATTTAGCGTTG 39 261 168 Antisense
TTCTCCGATTTAGCGTTGGCATTGA 618 693 175 Antisense
TGGAGATTTGAATGATGCCCTCGAG 406 549 218 Antisense
GAATGATGCCCTCGAGAAGCTTTGA 18 331 227 Antisense
Sequence Source Affymetrix Proprietary Database