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[192078_at] carbomoyl-phosphate carboxylase

Description F32B6.2 /REP_DB=WormBase Gene ID /WP=CE09857 /TR=O45430 /GB=CAB03038.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=carbomoyl-phosphate carboxylase
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 21      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 23      6grp_total > 32      4grp_total > 60      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2113
1 2 3 4 range
A 2333.2
(1.6)
P 		2682.9
(2.7)
P 		2787.7
(3)
P 		776.1
(-3)
P 		2012
B 2351.1
(2.5)
P 		2444.3
(2.8)
P 		2502.8
(3)
P 		674.8
(-3)
P 		1828
C 2133.8
(1.2)
P 		2474.3
(2.3)
P 		2707.3
(3)
P 		761.3
(-3)
P 		1946
avr 2272.7
(1.8) 		2533.8
(2.6) 		2665.9
(3) 		737.4
(-3) 		1929

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1605
1 2 3 4 5 6 range
A 2605.8
(3)
P 		2352.9
(1.6)
P 		2422.4
(2)
P 		2106.2
(0.2)
P 		1714.6
(-2)
P 		1545.3
(-3)
P 		1061
B 2180.5
(1)
P 		2224.6
(1.2)
P 		2609.8
(3)
P 		2064.6
(0.5)
P 		1576.6
(-1.8)
P 		1325.9
(-3)
P 		1284
C 2424.5
(1.1)
P 		2167
(0.1)
P 		2931
(3)
P 		2138
(-0)
P 		1764.5
(-1.5)
P 		1361
(-3)
P 		1570
avr 2403.6
(1.8) 		2248.2
(1) 		2654.4
(3) 		2102.9
(0.3) 		1685.2
(-1.7) 		1410.7
(-3) 		1244
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 830
1 2 3 4 range
A 849.5
(3)
P 		582.4
(0.8)
P 		728.8
(2)
P 		113.6
(-3)
P 		736
B 749.8
(3)
P 		603.7
(1.6)
P 		580
(1.3)
P 		143.8
(-3)
P 		606
C 706.4
(1.3)
P 		711.4
(1.3)
P 		943.6
(3)
P 		128.4
(-3)
P 		815
avr 768.6
(3) 		632.5
(1.7) 		750.8
(2.8) 		128.6
(-3) 		640

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 522
1 2 3 4 5 6 range
A 480.4
(-1.6)
P 		836.8
(3)
P 		527.6
(-1)
P 		534.2
(-0.9)
P 		517.4
(-1.2)
P 		376.2
(-3)
P 		461
B 758.7
(3)
P 		740.5
(2.6)
P 		633.7
(0.2)
P 		546.8
(-1.8)
P 		640.6
(0.3)
P 		494.4
(-3)
P 		264
C 898.6
(3)
P 		661.2
(-0)
P 		746
(1)
P 		430
(-3)
P 		571
(-1.2)
P 		455.6
(-2.7)
P 		469
avr 712.6
(2.3) 		746.2
(3) 		635.8
(0.8) 		503.7
(-1.8) 		576.3
(-0.4) 		442.1
(-3) 		304
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192078_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9230
Sequence Type Exemplar sequence
Representative Public ID F32B6.2 NCBI
Target Description F32B6.2 /REP_DB=WormBase Gene ID /WP=CE09857 /TR=O45430 /GB=CAB03038.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=carbomoyl-phosphate 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_069376(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069376 NCBI Caenorhabditis elegans F32B6.2 (F32B6.2) mRNA, complete cds. 11/11 None
SNAP00000041529 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9884542:9886937:1 10/11 None
GENEFINDER00000041539 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9884542:9886937:1 11/11 None
F32B6.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:9884540:9887103:1 gene:F32B6.2 11/11 None
F32B6.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:9884542:9887124:1 gene:F32B6.2 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
chrIV:9884547-9886943(+) 100.0 100.0
Public Domain and Genome References
Gene Title carbomoyl-phosphate carboxylase
Ensembl F32B6.2
Entrez Gene 177841 Entrez gene
SwissProt O45430 EMBL-EBI
WormBase CE35517 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:263118_AT methylcrotonyl-CoA carboxylase alpha chain, mitochondrial / 3-methylcrotonyl-CoA carboxylase 1 (MCCA) at
ATGENOME1:15519_S_AT methylcrotonyl-CoA carboxylase alpha chain, mitochondrial / 3-methylcrotonyl-CoA carboxylase 1 (MCCA) at
CANINE_2:CFAAFFX.18288.1.S1_AT similar to methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) cfa
DROSOPHILA_2:1635616_A_AT dm
DROSGENOME1:153355_AT dm
CHICKEN:GGA.16102.1.S1_S_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) gga
HG-U133_PLUS_2:218440_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133A:218440_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-FOCUS:218440_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133A_2:218440_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HU35KSUBB:RC_AA134549_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
U133_X3P:G13518227_3P_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U95B:45026_S_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U95B:52542_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133_PLUS_2:242223_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133B:242223_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133_PLUS_2:242703_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U133B:242703_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U95C:54014_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U95E:83268_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
HG-U95D:83780_R_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
U133_X3P:HS.151609.0.A1_3P_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
U133_X3P:HS.270135.0.A1_3P_AT Methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) hs
MU11KSUBA:AA197973_S_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
MG-U74AV2:94940_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
MOE430A:1417227_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
MOUSE430A_2:1417227_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
MOUSE430_2:1417227_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
MU19KSUBA:TC21062_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) mm
RG-U34C:RC_AI105272_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) (predicted) rn
RAE230A:1376852_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) (predicted) rn
RAT230_2:1376852_AT methylcrotonoyl-Coenzyme A carboxylase 1 (alpha) (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
9374 biotin binding inferred from electronic annotation QuickGO AmiGO
16874 ligase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03038 Hypothetical protein F32B6.2 [Caenorhabditis elegans] ref|NP_501777.2| F32B6.2 [Caenorhabditis elegans] 0.0
blast CAE59973 Hypothetical protein CBG03464 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005482 EMBL-EBI Biotin carboxylase, C-terminal 9.8E-58
Pfam IPR005481 EMBL-EBI Carbamoyl-phosphate synthetase large chain, N-terminal 1.9E-48
Pfam IPR005479 EMBL-EBI Carbamoyl-phosphate synthase L chain, ATP-binding 3.8E-101
Pfam IPR000089 EMBL-EBI Biotin/lipoyl attachment 6.0E-14
Pfam IPR000089 EMBL-EBI Biotin/lipoyl attachment 6.0E-14
Sequence
Target Sequence 
>C. ELEGANS:192078_AT
tgctgaatctgaaactcctgctgaaatttacgttgagtcggctgtagcacatgctttggc
tgcccttcaaaaatcagatgcaggtgtcttccagaatttatctttctttagaatgaattt
gtcaccaaaatacattttcaaaatagacggaaaagatgtcagcattagatttgattctga
tagtcgcctgacagtgtcttatgatggcaacagttatgaaacacttctcaacgacattga
atcaaccacagacggatctttcaagtttacattggaagctaatggcaggcgctggagtac
tgtcgttaaaaatctaggaaatagtttgatggtgaatggagttggtcaaaacgaatatga
aactccacaaatccatgaaacatttgattcgttatccggaggagcagccagtcattctgc
cgtcgcaccaatgccaggaattattgaaaaaattcttgtgaagcctggagagcaggtaac
tacaggccaagcactcgtagtgatgacagcaatgaaaatggaatacatcattcgtgcccc
ggaagactcaactgttgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTGAATCTGAAACTCCTGCTGAA 260 583 1458 Antisense
TGAGTCGGCTGTAGCACATGCTTTG 226 567 1491 Antisense
ATGCTTTGGCTGCCCTTCAAAAATC 353 41 1508 Antisense
ATCAGATGCAGGTGTCTTCCAGAAT 178 29 1530 Antisense
GATTTGATTCTGATAGTCGCCTGAC 467 427 1625 Antisense
GAATCAACCACAGACGGATCTTTCA 135 327 1696 Antisense
AATGGCAGGCGCTGGAGTACTGTCG 103 163 1738 Antisense
TATCCGGAGGAGCAGCCAGTCATTC 463 657 1850 Antisense
AGGTAACTACAGGCCAAGCACTCGT 702 57 1931 Antisense
AATGGAATACATCATTCGTGCCCCG 204 163 1974 Antisense
TGCCCCGGAAGACTCAACTGTTGAA 628 581 1992 Antisense
Sequence Source Affymetrix Proprietary Database