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[192924_s_at] ornithine decarboxylase

Description K11C4.4 /REP_DB=WormBase Gene ID /WP=CE12114 /GEN=odc-1 /TR=SW:P41931 /GB=AAB18317.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ornithine decarboxylase
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 67      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 69      6grp_total > 68      4grp_total > 09      6grp_highest_sub > Da      6grp_cgc > 38      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 5188
1 2 3 4 range
A 701
(-3)
P 		1526.2
(-2)
P 		1484
(-2.1)
P 		5737.6
(3)
P 		5037
B 716.5
(-3)
P 		1253
(-2.4)
P 		1632.9
(-1.9)
P 		5875.7
(3)
P 		5159
C 688.1
(-3)
P 		1176.8
(-2.4)
P 		1385.9
(-2.1)
P 		5488.1
(3)
P 		4800
avr 701.9
(-3) 		1318.7
(-2.3) 		1500.9
(-2) 		5700.5
(3) 		4999

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4882
1 2 3 4 5 6 range
A 1877.4
(-2.3)
P 		2395.3
(-1.6)
P 		1319.5
(-3)
P 		1726.2
(-2.5)
P 		1767.3
(-2.4)
P 		5985.7
(3)
P 		4666
B 1916.4
(-2)
P 		1908
(-2.1)
P 		1385.4
(-3)
P 		1464.4
(-2.9)
P 		1778
(-2.3)
P 		4706.9
(3)
P 		3322
C 2032.2
(-1.4)
P 		1838.1
(-1.8)
P 		1488.4
(-2.3)
P 		1103.7
(-3)
P 		2351.2
(-0.9)
P 		4637
(3)
P 		3533
avr 1942
(-2.1) 		2047.1
(-2) 		1397.8
(-3) 		1431.4
(-2.9) 		1965.5
(-2.1) 		5109.9
(3) 		3712
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1024
1 2 3 4 range
A 255.2
(-3)
P 		331.3
(-2.2)
P 		387.9
(-1.6)
P 		839.9
(3)
P 		585
B 228.5
(-3)
P 		309.5
(-2.5)
P 		378.4
(-2.1)
P 		1252.1
(3)
P 		1024
C 227.8
(-3)
P 		338.3
(-2)
P 		483
(-0.8)
P 		925.4
(3)
P 		698
avr 237.2
(-3) 		326.4
(-2.3) 		416.4
(-1.6) 		1005.8
(3) 		769

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1533
1 2 3 4 5 6 range
A 346.1
(-2.7)
P 		851.9
(-0.1)
P 		287.4
(-3)
P 		437.8
(-2.2)
P 		533.3
(-1.7)
P 		1457.3
(3)
P 		1170
B 666.8
(-1.6)
P 		635.1
(-1.7)
P 		336.4
(-3)
P 		387.9
(-2.8)
P 		722.4
(-1.4)
P 		1755.2
(3)
P 		1419
C 753.3
(-0.6)
P 		560.9
(-1.5)
P 		378.8
(-2.3)
P 		222
(-3)
P 		760.8
(-0.6)
P 		1552.3
(3)
P 		1330
avr 588.7
(-1.8) 		682.6
(-1.3) 		334.2
(-3) 		349.2
(-2.9) 		672.2
(-1.4) 		1588.3
(3) 		1254
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192924_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11567
Sequence Type Exemplar sequence
Representative Public ID K11C4.4 NCBI
Target Description K11C4.4 /REP_DB=WormBase Gene ID /WP=CE12114 /GEN=odc-1 /TR=SW:P41931 /GB=AAB18317.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ornithine 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_072351(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072351 NCBI Caenorhabditis elegans Ornithine DeCarboxylase family member (odc-1) (odc-1) mRNA, complete cds. 11/11 None
SNAP00000040596 ENSEMBL cdna:SNAP chromosome:CEL140:V:6901177:6902549:-1 11/11 None
GENEFINDER00000040639 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:6901177:6902549:-1 11/11 None
K11C4.4 ENSEMBL cdna:known chromosome:CEL140:V:6901143:6902816:-1 gene:K11C4.4 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:6901177-6902550(-) 100.0 100.0
Public Domain and Genome References
Gene Title ornithine decarboxylase
Gene Symbol odc-1
Ensembl K11C4.4
Entrez Gene 179079 Entrez gene
SwissProt P41931 EMBL-EBI
WormBase CE12114 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583441_AT similar to Ornithine decarboxylase (ODC) cfa
CANINE_2:CFAAFFX.6079.1.S1_S_AT similar to Ornithine decarboxylase (ODC) cfa
DROSOPHILA_2:1635318_AT Ornithine decarboxylase 1 dm
DROSGENOME1:152531_AT Ornithine decarboxylase 1 dm
CHICKEN:GGA.4340.1.S1_AT ornithine decarboxylase 1 gga
HG-U95AV2:1081_AT ornithine decarboxylase 1 hs
HC-G110:1081_AT ornithine decarboxylase 1 hs
HG-U133A:200790_AT ornithine decarboxylase 1 hs
HG-U133_PLUS_2:200790_AT ornithine decarboxylase 1 hs
HG-FOCUS:200790_AT ornithine decarboxylase 1 hs
HG-U133A_2:200790_AT ornithine decarboxylase 1 hs
HUGENEFL:M33764_AT ornithine decarboxylase 1 hs
U133_X3P:G4505488_3P_AT ornithine decarboxylase 1 hs
HG-U95AV2:36203_AT ornithine decarboxylase 1 hs
MU11KSUBA:S64539_S_AT ornithine decarboxylase, structural 1 mm
MOE430A:1427364_A_AT ornithine decarboxylase, structural 1 mm
MOUSE430A_2:1427364_A_AT ornithine decarboxylase, structural 1 mm
MOUSE430_2:1427364_A_AT ornithine decarboxylase, structural 1 mm
MOE430A:1437711_X_AT ornithine decarboxylase, structural 1 mm
MOUSE430A_2:1437711_X_AT ornithine decarboxylase, structural 1 mm
MOUSE430_2:1437711_X_AT ornithine decarboxylase, structural 1 mm
MOE430A:1438761_A_AT ornithine decarboxylase, structural 1 mm
MOUSE430A_2:1438761_A_AT ornithine decarboxylase, structural 1 mm
MOUSE430_2:1438761_A_AT ornithine decarboxylase, structural 1 mm
RG-U34A:J04791_S_AT ornithine decarboxylase 1 rn
RT-U34:J04791_S_AT ornithine decarboxylase 1 rn
RT-U34:X07944EXON#1-12_S_AT ornithine decarboxylase 1 rn
RG-U34A:X07944EXON#1-12_S_AT ornithine decarboxylase 1 rn
RG-U34A:J04792_AT ornithine decarboxylase 1 rn
RAE230A:1370163_AT ornithine decarboxylase 1 rn
RAT230_2:1370163_AT ornithine decarboxylase 1 rn
YEAST_2:1779597_AT Ornithine decarboxylase, catalyzes the first step in polyamine biosynthesis; degraded in a proteasome-dependent manner in the presence of excess polyamines Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6596 polyamine biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB18317 Ornithine decarboxylase protein 1 [Caenorhabditis elegans] ref|NP_504752.1| Ornithine DeCarboxylase family member (odc-1) [Caenorhabditis elegans] sp|P41931|DCOR_CAEEL Ornithine decarboxylase (ODC) 0.0
blast AAA88795 ornithine decarboxylase 0.0
blast CAE71969 Hypothetical protein CBG19040 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000183 EMBL-EBI Orn/DAP/Arg decarboxylase 2 7.2E-58
Pfam IPR000183 EMBL-EBI Orn/DAP/Arg decarboxylase 2 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:192924_S_AT
ccaggagccgaacatcataacccattcgagaagattgccgagacaattcgtgatgctctt
gatgagttctttccagacaccaacaagcgcctgattgctgaaccaggaagatttttcgca
gccggtccattttctcttgttgcaaacatcattcatgccaccgaggttcctgcttccaaa
atcacaaaggatccaaaagactgcgctgatcatggatacatgtactacatcaacgacgga
gtctacggatcgttcaactgcatcctcttcgatcatgctcatccaatcggatccccgctt
tttgacactgatcgcaacgagaagttcatgtcaacaatctgggggccaacttgcgacagt
ctagatcttgtcgaggataagaagttgatgccaaagatgaatgttggagaatggctctac
tatccggacatgggagcgtacactcttgccgctgccaccacgttcaatggattttcgaag
cctgtgccgatgtatgtgatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAGGAGCCGAACATCATAACCCAT 279 271 736 Antisense
TGCTCTTGATGAGTTCTTTCCAGAC 442 581 789 Antisense
GACACCAACAAGCGCCTGATTGCTG 44 369 811 Antisense
CAGGAAGATTTTTCGCAGCCGGTCC 192 209 839 Antisense
TCCATTTTCTCTTGTTGCAAACATC 514 591 861 Antisense
AAACATCATTCATGCCACCGAGGTT 286 129 879 Antisense
AAAGACTGCGCTGATCATGGATACA 203 123 931 Antisense
GTACTACATCAACGACGGAGTCTAC 381 459 957 Antisense
GGAGTCTACGGATCGTTCAACTGCA 76 505 973 Antisense
AACAATCTGGGGGCCAACTTGCGAC 352 131 1068 Antisense
AAGCCTGTGCCGATGTATGTGATGA 541 149 1213 Antisense
Sequence Source Affymetrix Proprietary Database