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[192107_s_at] pyruvate carboxylase

Description D2023.2 /REP_DB=WormBase Gene ID /WP=CE09072 /GEN=pyc-1 /TR=O17732 /GB=CAB02872.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=pyruvate carboxylase
Cluster 6grp_highest_10_10 > 56      6grp_high1_10_10 > 54      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 47      6grp_total > 45      4grp_total > 46      6grp_cgc > 45      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3858
1 2 3 4 range
A 6059.1
(3)
P 		3289.2
(-1.3)
P 		2733
(-2.2)
P 		2200.7
(-3)
P 		3858
B 4880.6
(3)
P 		3075.2
(-1.5)
P 		2478.7
(-3)
P 		2584.8
(-2.7)
P 		2402
C 5471
(3)
P 		3027.1
(-1.8)
P 		3267
(-1.3)
P 		2413.4
(-3)
P 		3058
avr 5470.2
(3) 		3130.5
(-1.6) 		2826.2
(-2.2) 		2399.6
(-3) 		3071

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1530
1 2 3 4 5 6 range
A 2541.6
(-3)
P 		3350.4
(2.1)
P 		2824.5
(-1.2)
P 		2658.1
(-2.3)
P 		2623.8
(-2.5)
P 		3487
(3)
P 		945
B 3226.7
(-0.9)
P 		3509.1
(0.4)
P 		4071.6
(3)
P 		3050.2
(-1.7)
P 		2764.3
(-3)
P 		3492.3
(0.3)
P 		1307
C 3618.2
(3)
P 		3129.5
(0.1)
P 		3323.5
(1.3)
P 		2601.2
(-3)
P 		3270.5
(0.9)
P 		3385.7
(1.6)
P 		1017
avr 3128.8
(0.1) 		3329.7
(1.9) 		3406.5
(2.6) 		2769.8
(-3) 		2886.2
(-2) 		3455
(3) 		685
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1884
1 2 3 4 range
A 2206.1
(3)
P 		714
(-1.8)
P 		714.5
(-1.8)
P 		322.1
(-3)
P 		1884
B 1556.4
(3)
P 		759.5
(-1.8)
P 		574.4
(-2.9)
P 		550.8
(-3)
P 		1006
C 1811.1
(3)
P 		870.3
(-1)
P 		1138.7
(0.1)
P 		406.9
(-3)
P 		1404
avr 1857.9
(3) 		781.3
(-1.5) 		809.2
(-1.4) 		426.6
(-3) 		1431

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 873
1 2 3 4 5 6 range
A 468.5
(-3)
P 		1191.6
(3)
P 		615.1
(-1.8)
P 		674.1
(-1.3)
P 		791.8
(-0.3)
P 		849
(0.2)
P 		723
B 1122.7
(0.8)
P 		1168
(1.4)
P 		988.7
(-0.8)
P 		807.9
(-3)
P 		1123.1
(0.8)
P 		1302.3
(3)
P 		494
C 1341.1
(3)
P 		954.9
(0.2)
P 		845.9
(-0.6)
P 		523.1
(-3)
P 		1058.3
(0.9)
P 		1133.4
(1.5)
P 		818
avr 977.4
(1.2) 		1104.8
(3) 		816.6
(-1) 		668.4
(-3) 		991.1
(1.4) 		1094.9
(2.9) 		436
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192107_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13765
Sequence Type Exemplar sequence
Representative Public ID D2023.2 NCBI
Target Description D2023.2 /REP_DB=WormBase Gene ID /WP=CE09072 /GEN=pyc-1 /TR=O17732 /GB=CAB02872.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=pyruvate carboxylase
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_073576(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073576 NCBI Caenorhabditis elegans PYruvate Carboxylase family member (pyc-1) (pyc-1) mRNA, complete cds. 11/11 None
SNAP00000024926 ENSEMBL cdna:SNAP chromosome:CEL140:V:11820718:11824940:-1 11/11 None
GENEFINDER00000024934 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11820718:11824940:-1 11/11 None
D2023.2.1 ENSEMBL cdna:known chromosome:CEL140:V:11820371:11824953:-1 gene:D2023.2 11/11 None
D2023.2.2 ENSEMBL cdna:known chromosome:CEL140:V:11820371:11824962:-1 gene:D2023.2 11/11 None
D2023.2.3 ENSEMBL cdna:known chromosome:CEL140:V:11820371:11825117:-1 gene:D2023.2 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:11820717-11824940(-) 100.0 100.0
Public Domain and Genome References
Gene Title pyruvate carboxylase
Gene Symbol pyc-1
Ensembl D2023.2
Entrez Gene 179616 Entrez gene
SwissProt O17732 EMBL-EBI
WormBase CE09072 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.17343.1.S1_S_AT similar to Pyruvate carboxylase, mitochondrial precursor (Pyruvic carboxylase) (PCB) cfa
CANINE_2:CFA.18692.1.S1_S_AT similar to Pyruvate carboxylase, mitochondrial precursor (Pyruvic carboxylase) (PCB) cfa
DROSOPHILA_2:1640629_S_AT dm
DROSOPHILA_2:1639255_S_AT dm
DROSGENOME1:152059_AT dm
HG-U133_PLUS_2:204476_S_AT pyruvate carboxylase hs
HG-U133A:204476_S_AT pyruvate carboxylase hs
HG-FOCUS:204476_S_AT pyruvate carboxylase hs
HG-U133A_2:204476_S_AT pyruvate carboxylase hs
HU35KSUBA:S72370_AT pyruvate carboxylase hs
HUGENEFL:S72370_AT pyruvate carboxylase hs
HU35KSUBC:RC_N59231_S_AT pyruvate carboxylase hs
HU35KSUBD:RC_T77729_F_AT pyruvate carboxylase hs
U133_X3P:G11761614_3P_A_AT pyruvate carboxylase hs
HG-U95AV2:38000_AT pyruvate carboxylase hs
MU11KSUBA:L09192_S_AT pyruvate carboxylase mm
MG-U74AV2:93308_S_AT pyruvate carboxylase mm
MG-U74AV2:162288_F_AT pyruvate carboxylase mm
MG-U74CV2:168162_F_AT pyruvate carboxylase mm
MOE430A:1416383_A_AT pyruvate carboxylase mm
MOUSE430A_2:1416383_A_AT pyruvate carboxylase mm
MOUSE430_2:1416383_A_AT pyruvate carboxylase mm
MG-U74CV2:171076_I_AT Pyruvate carboxylase (Pcx), mRNA mm
MU19KSUBA:TC15853_S_AT Pyruvate carboxylase (Pcx), mRNA mm
RG-U34A:U32314_G_AT Pyruvate carboxylase rn
RG-U34A:U32314_AT Pyruvate carboxylase rn
RAE230A:1386917_AT Pyruvate carboxylase rn
RAT230_2:1386917_AT Pyruvate carboxylase rn
RG-U34B:RC_AI043999_AT Pyruvate carboxylase rn
YEAST_2:1771915_AT Pyruvate carboxylase isoform, cytoplasmic enzyme that converts pyruvate to oxaloacetate; highly similar to isoform Pyc2p but differentially regulated; mutations in the human homolog are associated with lactic acidosis Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6094 gluconeogenesis inferred from electronic annotation QuickGO AmiGO
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
4736 pyruvate carboxylase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
16874 ligase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02872 Hypothetical protein D2023.2 [Caenorhabditis elegans] ref|NP_505977.1| PYruvate Carboxylase family member (pyc-1) [Caenorhabditis elegans] gb|AAF60326.1| pyruvate carboxylase [Caenorhabditis elegans] 0.0
blast CAE75294 Hypothetical protein CBG23262 [Caenorhabditis briggsae] 0.0
blast AAM71031 CG1516-PG, isoform G [Drosophila melanogaster] gb|AAM71030.1| CG1516-PE, isoform E [Drosophila melanogaster] gb|AAF58886.1| CG1516-PD, isoform D [Drosophila melanogaster] gb|AAF58887.1| CG1516-PB, isoform B [Drosophila melanogaster] gb|AAF58885.1| CG1516-PA, isoform A [Drosophila melanogaster] ref|NP_724840.1| CG1516-PG, isoform G [Drosophila melanogaster] ref|NP_724839.1| CG1516-PD, isoform D [Drosophila melanogaster] ref|NP_724838.1| CG1516-PB, isoform B [Drosophila melanogaster] ref|NP_724837.1| CG1516-PA, isoform A [Drosophila melanogaster] ref|NP_610527.1| CG1516-PE, isoform E [Drosophila melanogaster] gb|AAD34740.1| unknown [Drosophila melanogaster] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005482 EMBL-EBI Biotin carboxylase, C-terminal 1.3E-63
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 6.7E-39
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 4.9E-110
Pfam IPR000089 EMBL-EBI Biotin/lipoyl attachment 9.4E-21
Pfam IPR000891 EMBL-EBI HMG-CoA lyase-like 7.2E-9
Pfam IPR000891 EMBL-EBI HMG-CoA lyase-like 4.3E-19
Pfam IPR003379 EMBL-EBI Conserved carboxylase region 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:192107_S_AT
gatctagatgctgtgaaggtcgaacttgaagagaaacatggacgtactttgtctgaagaa
gatgtgatgtcatattcgatgttcccaacggttttcgatgagtttgagactttccgtcaa
caatatggaccagttgataagctgccaacgagactcttcttgactggattggagattgcg
gaagaagttgatgttgaaatcgagagtggaaaaactcttgcaattcaattgctcgctgaa
ggaaaactaaacaagcgtggagaacgcgaagtcttctttgatctcaatggacaaatgaga
agtatcttcgtggttgacaaggaagcttccaaggaaattgtaactcgcccaagagctctc
ccaggtgtccgtggacatattggagcaccaatgccaggagatgttttggagctgaaaatc
aaggaaggcgacaaggttaccaagaagcaacccctatttgtgctttccgccatgaaaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTAGATGCTGTGAAGGTCGAAC 658 419 2956 Antisense
GAAACATGGACGTACTTTGTCTGAA 631 355 2988 Antisense
GTCATATTCGATGTTCCCAACGGTT 210 225 3024 Antisense
TGTTCCCAACGGTTTTCGATGAGTT 145 561 3035 Antisense
GAGTTTGAGACTTTCCGTCAACAAT 665 397 3055 Antisense
TATGGACCAGTTGATAAGCTGCCAA 210 653 3079 Antisense
AGCTGCCAACGAGACTCTTCTTGAC 484 79 3095 Antisense
CGAGACTCTTCTTGACTGGATTGGA 686 249 3104 Antisense
GAGCACCAATGCCAGGAGATGTTTT 686 389 3338 Antisense
GAAGCAACCCCTATTTGTGCTTTCC 312 335 3399 Antisense
ATTTGTGCTTTCCGCCATGAAAATG 351 17 3411 Antisense
Sequence Source Affymetrix Proprietary Database