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[188304_at]

Description F47G4.7 /REP_DB=WormBase Gene ID /WP=CE18705 /GEN=smd-1 /TR=SW:O02655 /GB=CAB16315.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 02      4grp_total > 58      6grp_cgc > 52      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 625
1 2 3 4 range
A 430.9
(-1.6)
A 		718.1
(1.8)
A 		820
(3)
A 		314.3
(-3)
A 		506
B 372.2
(-1.9)
A 		672.6
(1.4)
A 		815.3
(3)
A 		269.3
(-3)
A 		546
C 341.6
(-1.6)
A 		822.4
(3)
A 		735
(2.2)
A 		197.8
(-3)
A 		625
avr 381.6
(-1.6) 		737.7
(2.4) 		790.1
(3) 		260.5
(-3) 		530

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 788
1 2 3 4 5 6 range
A 794.9
(-1.7)
A 		1144.1
(3)
A 		768.5
(-2)
A 		1065.9
(2)
A 		1028
(1.5)
A 		693.7
(-3)
A 		450
B 771.7
(-0.2)
A 		1037.3
(3)
A 		819.5
(0.4)
A 		701.6
(-1)
A 		883.2
(1.2)
A 		533.7
(-3)
A 		504
C 1015.4
(2.3)
A 		923.9
(1.6)
A 		906.2
(1.5)
A 		722.5
(-0)
A 		1096
(3)
A 		355.7
(-3)
A 		740
avr 860.7
(0.9) 		1035.1
(3) 		831.4
(0.6) 		830
(0.6) 		1002.4
(2.6) 		527.7
(-3) 		507
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 223
1 2 3 4 range
A 156.9
(1)
A 		155.9
(0.9)
A 		214.4
(3)
A 		46
(-3)
A 		168
B 118.7
(-0.2)
A 		166.1
(2)
A 		188.9
(3)
A 		57.4
(-3)
A 		132
C 113.1
(-0.9)
A 		236.4
(2.5)
A 		256.2
(3)
A 		33.4
(-3)
A 		223
avr 129.6
(-0.1) 		186.1
(1.8) 		219.8
(3) 		45.6
(-3) 		174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 288
1 2 3 4 5 6 range
A 146.5
(-3)
A 		406.9
(3)
A 		167.4
(-2.5)
A 		270.3
(-0.1)
A 		310.2
(0.8)
A 		168.9
(-2.5)
A 		260
B 268.5
(-0.1)
A 		345.3
(2.5)
A 		199
(-2.5)
A 		185.8
(-3)
A 		358.8
(3)
A 		199
(-2.5)
A 		173
C 376.4
(3)
A 		281.9
(0.8)
A 		230.7
(-0.4)
A 		145.3
(-2.4)
A 		354.7
(2.5)
A 		119.1
(-3)
A 		257
avr 263.8
(0.3) 		344.7
(3) 		199
(-1.8) 		200.5
(-1.7) 		341.2
(2.9) 		162.3
(-3) 		182
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188304_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1780
Sequence Type Exemplar sequence
Representative Public ID F47G4.7 NCBI
Target Description F47G4.7 /REP_DB=WormBase Gene ID /WP=CE18705 /GEN=smd-1 /TR=SW:O02655 /GB=CAB16315.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_061047(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061047 NCBI Caenorhabditis elegans SAM Decarboxylase family member (smd-1) (smd-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000012297 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14057268:14058401:-1 9/11 None
F47G4.7.1 ENSEMBL cdna:known chromosome:CEL140:I:14055820:14059121:-1 gene:F47G4.7 11/11 A 
F47G4.7.2 ENSEMBL cdna:known chromosome:CEL140:I:14056203:14059121:-1 gene:F47G4.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000010877 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:14056586-14058332(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol smd-1
Ensembl F47G4.7
Entrez Gene 173269 Entrez gene
SwissProt O02655 EMBL-EBI
WormBase CE18705 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:257960_AT adenosylmethionine decarboxylase family protein at
CANINE_2:CFAAFFX.6803.1.S1_AT similar to S-adenosylmethionine decarboxylase proenzyme (AdoMetDC) (SamDC) cfa
DROSOPHILA_2:1635130_A_AT S-adenosylmethionine decarboxylase dm
DROSOPHILA_2:1633958_AT S-adenosylmethionine decarboxylase dm
DROSGENOME1:153968_AT S-adenosylmethionine decarboxylase dm
CHICKEN:GGA.15754.1.S1_AT adenosylmethionine decarboxylase 1 gga
CHICKEN:GGA.8864.1.S1_AT adenosylmethionine decarboxylase 1 gga
CHICKEN:GGA.8864.1.S1_S_AT adenosylmethionine decarboxylase 1 gga
CHICKEN:GGAAFFX.21316.1.S1_S_AT adenosylmethionine decarboxylase 1 gga
HG-U133_PLUS_2:201196_S_AT adenosylmethionine decarboxylase 1 hs
HG-U133A_2:201196_S_AT adenosylmethionine decarboxylase 1 hs
HG-U133A:201196_S_AT adenosylmethionine decarboxylase 1 hs
HG-U133A_2:201197_AT adenosylmethionine decarboxylase 1 hs
HG-U133A:201197_AT adenosylmethionine decarboxylase 1 hs
HG-U133_PLUS_2:201197_AT adenosylmethionine decarboxylase 1 hs
HG-FOCUS:201197_AT adenosylmethionine decarboxylase 1 hs
HG-U95AV2:263_G_AT adenosylmethionine decarboxylase 1 hs
HC-G110:263_G_AT adenosylmethionine decarboxylase 1 hs
HG-U95AV2:262_AT adenosylmethionine decarboxylase 1 hs
HC-G110:262_AT adenosylmethionine decarboxylase 1 hs
HG-U95AV2:36685_AT adenosylmethionine decarboxylase 1 hs
HU35KSUBA:RC_AA088851_S_AT adenosylmethionine decarboxylase 1 hs
HU35KSUBA:W63793_AT adenosylmethionine decarboxylase 1 hs
HU35KSUBD:RC_AA425692_S_AT adenosylmethionine decarboxylase 1 hs
HUGENEFL:M21154_AT adenosylmethionine decarboxylase 1 hs
U133_X3P:G5209326_3P_AT adenosylmethionine decarboxylase 1 hs
U133_X3P:G178517_3P_A_AT adenosylmethionine decarboxylase 1 hs
HG-U95AV2:36684_AT adenosylmethionine decarboxylase 1 hs
HG-U95D:83759_R_AT adenosylmethionine decarboxylase 1 hs
MG-U74AV2:100324_G_AT S-adenosylmethionine decarboxylase 1 mm
MG-U74AV2:100323_AT S-adenosylmethionine decarboxylase 1 mm
MU11KSUBB:Z14986_S_AT S-adenosylmethionine decarboxylase 1 mm
MG-U74AV2:101489_AT S-adenosylmethionine decarboxylase 1 mm
MOE430A:1448484_AT S-adenosylmethionine decarboxylase 1 mm
MOUSE430A_2:1448484_AT S-adenosylmethionine decarboxylase 1 mm
MOUSE430_2:1448484_AT S-adenosylmethionine decarboxylase 1 mm
MOE430A:1416835_S_AT S-adenosylmethionine decarboxylase 1 mm
MOUSE430A_2:1416835_S_AT S-adenosylmethionine decarboxylase 1 mm
MOUSE430_2:1416835_S_AT S-adenosylmethionine decarboxylase 1 mm
MG-U74AV2:100324_G_AT S-adenosylmethionine decarboxylase 2 mm
MG-U74AV2:100323_AT S-adenosylmethionine decarboxylase 2 mm
MOE430A:1416835_S_AT S-adenosylmethionine decarboxylase 2 mm
MOUSE430A_2:1416835_S_AT S-adenosylmethionine decarboxylase 2 mm
MOUSE430_2:1416835_S_AT S-adenosylmethionine decarboxylase 2 mm
MG-U74AV2:100324_G_AT similar to S-adenosylmethionine decarboxylase mm
MG-U74AV2:100323_AT similar to S-adenosylmethionine decarboxylase mm
MG-U74AV2:101489_AT similar to S-adenosylmethionine decarboxylase mm
MOE430A:1416835_S_AT similar to S-adenosylmethionine decarboxylase mm
MOUSE430A_2:1416835_S_AT similar to S-adenosylmethionine decarboxylase mm
MOUSE430_2:1416835_S_AT similar to S-adenosylmethionine decarboxylase mm
MU19KSUBB:TC32104_F_AT S-adenosylmethionine decarboxylase 2 (Amd2), mRNA mm
RG-U34A:Z15123EXON#5_S_AT S-adenosylmethionine decarboxylase 1 rn
RG-U34A:RC_AI008131_S_AT S-adenosylmethionine decarboxylase 1 rn
RAE230A:1367933_AT S-adenosylmethionine decarboxylase 1 rn
RAT230_2:1367933_AT S-adenosylmethionine decarboxylase 1 rn
YEAST_2:1778906_AT S-adenosylmethionine decarboxylase, required for the biosynthesis of spermidine and spermine; cells lacking Spe2p require spermine or spermidine for growth in the presence of oxygen but not when grown anaerobically Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6597 spermine biosynthesis inferred from electronic annotation QuickGO AmiGO
8295 spermidine biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4014 adenosylmethionine decarboxylase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA19560 Hypothetical protein F47G4.7 [Caenorhabditis elegans] emb|CAB16315.1| Hypothetical protein F47G4.7 [Caenorhabditis elegans] emb|CAA73102.1| adenosylmethionine decarboxylase [Caenorhabditis elegans] emb|CAA73101.1| adenosylmethionine decarboxylase [Caenorhabditis elegans] ref|NP_493448.1| SAM Decarboxylase family member (smd-1) [Caenorhabditis elegans] sp|O02655|DCAM_CAEEL S-adenosylmethionine decarboxylase proenzyme (AdoMetDC) (SamDC) [Contains: S-adenosylmethionine decarboxylase alpha chain; S-adenosylmethionine decarboxylase beta chain] 0.0
blast CAE71824 Hypothetical protein CBG18863 [Caenorhabditis briggsae] 0.0
blast CAA65018 S-adenosylmethionine decarboxylase [Onchocerca volvulus] emb|CAA65017.1| S-adenosylmethionine decarboxylase [Onchocerca volvulus] sp|Q27883|DCAM_ONCVO S-adenosylmethionine decarboxylase proenzyme (AdoMetDC) (SamDC) [Contains: S-adenosylmethionine decarboxylase alpha chain; S-adenosylmethionine decarboxylase beta chain] 1.0E-100
Protein Domains
Database ID Description E-Value
Pfam IPR001985 EMBL-EBI S-adenosylmethionine decarboxylase 1.0E-126
Pfam IPR001985 EMBL-EBI S-adenosylmethionine decarboxylase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:188304_AT
gtactgtcttggatccctcaaacaggatagatggtacctttacacattccacagagaagt
tgagttcccagctcacaagcaacccgatcacaccttggagatcttgatgagcgatctgga
tgaggaggtgctccacaagtttaccaaagactatgcggtggatggcaatgactgcttcat
gcgagccggtattgacaagatcatcccggcaggtgcagatgttcacgacgagctgttcga
cccgtgcggctacagtatgaacgcttatatgaatgacactgaccaatacgcaaccatcca
cgtgactcccgagaaggcattcagcttcgcttccttcgagaccaaccaggacttggtctg
cctgtactcgcagactcggaaggttcttcagtgtttcagaccaaataagatcttgatgac
agtctttgccaatgacatttcggagaaggggaaggatgcccagcagcagttgtgggaccg
cgagctgccggggtatagaaggaccaatgtgcagtttgtgagacttgagacggaaaccct
agtctacgctcatttcgtgcgcaaggcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACTGTCTTGGATCCCTCAAACAG 127 459 495 Antisense
GTACCTTTACACATTCCACAGAGAA 416 457 528 Antisense
GAAGTTGAGTTCCCAGCTCACAAGC 261 337 550 Antisense
GATGTTCACGACGAGCTGTTCGACC 529 409 712 Antisense
TTCGACCCGTGCGGCTACAGTATGA 538 687 730 Antisense
GTGACTCCCGAGAAGGCATTCAGCT 502 481 796 Antisense
AACCAGGACTTGGTCTGCCTGTACT 354 145 838 Antisense
GCCTGTACTCGCAGACTCGGAAGGT 378 281 854 Antisense
GAAGGATGCCCAGCAGCAGTTGTGG 114 335 945 Antisense
GAGACGGAAACCCTAGTCTACGCTC 555 393 1021 Antisense
TACGCTCATTTCGTGCGCAAGGCCT 523 649 1039 Antisense
Sequence Source Affymetrix Proprietary Database