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[194078_s_at] glutamine-dependent carbamoyl-phosphate synthase, aspartate carbamoyltransferase, dihydroorotase

Description D2085.1 /REP_DB=WormBase Gene ID /WP=CE03105 /TR=Q18990 /GB=CAA91059.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=glutamine-dependent carbamoyl-phosphate synthase, aspartate carbamoyltransferase, dihydroorotase
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 96      4grp_highest_8_8 > 20      4grp_high_8_8 > 31      6grp_highest_nonorm > 95      6grp_total > 86      4grp_total > 32      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 675
1 2 3 4 range
A 447.8
(-3)
P 		671.6
(-0.7)
P 		1021.5
(3)
P 		823.3
(0.9)
P 		574
B 531.4
(-2.6)
P 		485.5
(-3)
P 		1123.2
(3)
P 		1109.9
(2.9)
P 		638
C 449.6
(-3)
P 		652.5
(-1.2)
P 		1114.1
(3)
P 		980.5
(1.8)
P 		665
avr 476.3
(-3) 		603.2
(-1.8) 		1086.3
(3) 		971.2
(1.9) 		610

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 673
1 2 3 4 5 6 range
A 357.6
(-3)
P 		538.7
(-1.3)
P 		468.7
(-1.9)
P 		587.1
(-0.8)
P 		688.9
(0.2)
P 		987.8
(3)
P 		630
B 392.1
(-3)
P 		519.5
(-1.5)
P 		494.6
(-1.8)
P 		769.5
(1.4)
P 		543.2
(-1.3)
P 		911.9
(3)
P 		520
C 571.9
(-1.6)
P 		437.1
(-3)
P 		629.4
(-1.1)
P 		657.5
(-0.8)
P 		744.5
(0.1)
P 		1030.4
(3)
P 		593
avr 440.5
(-3) 		498.4
(-2.4) 		530.9
(-2) 		671.4
(-0.4) 		658.9
(-0.6) 		976.7
(3) 		536
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 268
1 2 3 4 range
A 163.1
(-1.3)
P 		145.8
(-2)
P 		267
(3)
P 		120.5
(-3)
P 		147
B 169.5
(-0.9)
P 		119.9
(-3)
P 		260.3
(3)
P 		236.5
(2)
P 		140
C 148.8
(-3)
P 		187.6
(-2)
P 		388.3
(3)
P 		165.3
(-2.6)
P 		240
avr 160.5
(-2.6) 		151.1
(-3) 		305.2
(3) 		174.1
(-2.1) 		154

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 65.9
(-3)
P 		191.6
(1.3)
P 		102.1
(-1.8)
P 		148.9
(-0.1)
P 		207.9
(1.9)
P 		240.5
(3)
P 		175
B 136.4
(-2.6)
P 		172.9
(-1.6)
P 		120.1
(-3)
P 		203.8
(-0.7)
P 		220.7
(-0.3)
P 		340.1
(3)
P 		220
C 212
(-0.7)
P 		133.4
(-3)
P 		160.2
(-2.2)
P 		132.2
(-3)
P 		240.9
(0.1)
P 		344.9
(3)
P 		213
avr 138.1
(-2.6) 		166
(-1.7) 		127.5
(-3) 		161.6
(-1.9) 		223.2
(0.2) 		308.5
(3) 		181
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194078_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3735
Sequence Type Exemplar sequence
Representative Public ID D2085.1 NCBI
Target Description D2085.1 /REP_DB=WormBase Gene ID /WP=CE03105 /TR=Q18990 /GB=CAA91059.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=glutamine-dependent carbamoyl-phosphate synthase, aspartate carbamoyltransferase, dihydroorotase
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_063437(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063437 NCBI Caenorhabditis elegans PYRimidine biosynthesis family member (pyr-1) (pyr-1) mRNA, complete cds. 11/11 None
SNAP00000003891 ENSEMBL cdna:SNAP chromosome:CEL140:II:8651042:8658340:1 11/11 None
GENEFINDER00000003897 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8646250:8658340:1 11/11 None
D2085.1 ENSEMBL cdna:known chromosome:CEL140:II:8651057:8658731:1 gene:D2085.1 11/11 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
chrII:8651053-8658337(+) 100.0 100.0
Public Domain and Genome References
Gene Title glutamine-dependent carbamoyl-phosphate synthase, aspartate carbamoyltransferase, dihydroorotase
Gene Symbol pyr-1
Ensembl D2085.1
Entrez Gene 174385 Entrez gene
SwissProt Q18990 EMBL-EBI
WormBase CE03105 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.8124.1.S1_S_AT similar to carbamoylphosphate synthetase 2/aspartate transcarbamylase/dihydroorotase cfa
DROSGENOME1:151731_AT rudimentary dm
DROSOPHILA_2:1641267_AT rudimentary dm
DROSGENOME1:142945_AT rudimentary dm
HG-U95AV2:749_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HC-G110:749_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U95AV2:32031_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HUGENEFL:D78586_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U133A:202715_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U133_PLUS_2:202715_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-FOCUS:202715_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U133A_2:202715_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
U133_X3P:G4757895_3P_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
U133_X3P:HS2.377010.1.S1_3P_AT Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U133_PLUS_2:1564084_AT Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
HG-U95C:50353_AT Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase hs
MOUSE430_2:1452830_S_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOE430A:1452830_S_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOUSE430A_2:1452830_S_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MU11KSUBA:AA466758_S_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MG-U74AV2:96827_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MG-U74BV2:110115_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MG-U74AV2:161323_F_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOE430A:1452829_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOUSE430A_2:1452829_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOUSE430_2:1452829_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOE430B:1440857_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MOUSE430_2:1440857_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MG-U74BV2:116388_AT carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase mm
MU19KSUBA:TC23434_AT Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase (Cad), mRNA mm
MU19KSUBC:TC35187_AT Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase (Cad), mRNA mm
RG-U34A:AB007768_AT carbamyl phosphatate synthetase 2 rn
RG-U34B:RC_AI058913_AT carbamyl phosphatate synthetase 2 rn
RAE230A:1371797_AT carbamyl phosphatate synthetase 2 rn
RAT230_2:1371797_AT carbamyl phosphatate synthetase 2 rn
RAE230A:1385437_AT carbamyl phosphatate synthetase 2 rn
RAT230_2:1385437_AT carbamyl phosphatate synthetase 2 rn
YEAST_2:1779682_AT Bifunctional carbamoylphosphate synthetase (CPSase)-aspartate transcarbamylase (ATCase), catalyzes the first two enzymatic steps in the de novo biosynthesis of pyrimidines; both activities are subject to feedback inhibition by UTP Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6207 'de novo' pyrimidine base biosynthesis inferred from electronic annotation QuickGO AmiGO
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
6526 arginine biosynthesis inferred from electronic annotation QuickGO AmiGO
6807 nitrogen compound metabolism inferred from electronic annotation QuickGO AmiGO
8152 metabolism inferred from electronic annotation QuickGO AmiGO
9058 biosynthesis inferred from electronic annotation QuickGO AmiGO
19856 pyrimidine base biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
9347 aspartate carbamoyltransferase complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
4049 anthranilate synthase activity inferred from electronic annotation QuickGO AmiGO
4086 carbamoyl-phosphate synthase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
16597 amino acid binding inferred from electronic annotation QuickGO AmiGO
16743 carboxyl- and carbamoyltransferase activity inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
16812 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides inferred from electronic annotation QuickGO AmiGO
16874 ligase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91059 Hypothetical protein D2085.1 [Caenorhabditis elegans] ref|NP_495838.1| PYRimidine biosynthesis family member (pyr-1) [Caenorhabditis elegans] 0.0
blast CAE57538 Hypothetical protein CBG00515 [Caenorhabditis briggsae] 0.0
blast AAW80263 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 5.7E-58
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 4.3E-11
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 1.0E-126
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 9.3E-11
Pfam IPR006132 EMBL-EBI Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain 1.4E-69
Pfam IPR005480 EMBL-EBI Carbamoyl-phosphate synthetase large chain, oligomerisation 7.0E-92
Pfam IPR002474 EMBL-EBI Carbamoyl-phosphate synthase, small chain 2.4E-95
Pfam IPR006131 EMBL-EBI Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain 1.2E-49
Pfam IPR006680 EMBL-EBI Amidohydrolase 1.5E-7
Pfam IPR000991 EMBL-EBI Glutamine amidotransferase class-I 7.2E-70
Pfam IPR004362 EMBL-EBI Methylglyoxal synthase-like domain 5.2E-44
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 5.7E-58
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 4.3E-11
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 1.0E-126
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 9.3E-11
Pfam IPR006132 EMBL-EBI Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain 1.4E-69
Pfam IPR005480 EMBL-EBI Carbamoyl-phosphate synthetase large chain, oligomerisation 7.0E-92
Pfam IPR002474 EMBL-EBI Carbamoyl-phosphate synthase, small chain 2.4E-95
Pfam IPR006131 EMBL-EBI Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain 1.2E-49
Pfam IPR006680 EMBL-EBI Amidohydrolase 1.5E-7
Pfam IPR000991 EMBL-EBI Glutamine amidotransferase class-I 7.2E-70
Pfam IPR004362 EMBL-EBI Methylglyoxal synthase-like domain 5.2E-44
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 5.7E-58
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 4.3E-11
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 1.0E-126
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 9.3E-11
Pfam IPR006132 EMBL-EBI Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain 1.4E-69
Pfam IPR005480 EMBL-EBI Carbamoyl-phosphate synthetase large chain, oligomerisation 7.0E-92
Pfam IPR002474 EMBL-EBI Carbamoyl-phosphate synthase, small chain 2.4E-95
Pfam IPR006131 EMBL-EBI Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain 1.2E-49
Pfam IPR006680 EMBL-EBI Amidohydrolase 1.5E-7
Pfam IPR000991 EMBL-EBI Glutamine amidotransferase class-I 7.2E-70
Pfam IPR004362 EMBL-EBI Methylglyoxal synthase-like domain 5.2E-44
Sequence
Target Sequence 
>C. ELEGANS:194078_S_AT
agtttgcgatcaaccggtcatcaatggaggtgatggaactggtgaacatccaactcaagc
tcttctcgatgtgtacactattcgacaagaaatgggaacagtcaatggacttaccatcgc
tttggttggagatttgaagaatggaagaacggttcactcattggctaaacttttatgttt
gtataaggacatcacccttcactacgttgctccgagtaccgaacttgaaatgccacagga
agtcttggactacgtctcgtcgaagtcgaattttgttcagaagaagttcaccagtctggc
tgaaggaatcaatcatgtcgacgttgtctacgtgacaagaattcaaaaagaacgattctc
atctccagatgaatacaataaggtgaaaggaagctacgtaatcaatgcgaaacttctcaa
tgaggccgccagagatgtcgaggaaccatcgagtctgttggttccagctcgttctcttcc
aatcgtcatgcatccattgcctcgtgtggatgagattgctgttgaactggatcatgatga
aagagccgcctacttcagacaagcaaagaatggggtcttcgttcgtatgtctat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTTTGCGATCAACCGGTCATCAAT 509 63 5982 Antisense
TCAAGCTCTTCTCGATGTGTACACT 545 631 6036 Antisense
GAAGAACGGTTCACTCATTGGCTAA 88 333 6125 Antisense
ATAAGGACATCACCCTTCACTACGT 332 23 6164 Antisense
TACGTTGCTCCGAGTACCGAACTTG 534 303 6184 Antisense
AAAGAACGATTCTCATCTCCAGATG 443 123 6328 Antisense
AGGCCGCCAGAGATGTCGAGGAACC 435 53 6404 Antisense
TCGAGTCTGTTGGTTCCAGCTCGTT 436 603 6430 Antisense
TTCCAATCGTCATGCATCCATTGCC 587 701 6458 Antisense
GATGAAAGAGCCGCCTACTTCAGAC 342 411 6517 Antisense
ATGGGGTCTTCGTTCGTATGTCTAT 29 51 6551 Antisense
Sequence Source Affymetrix Proprietary Database