[Home] | [Total List]

[188749_s_at] UMP synthase

Description T07C4.1 /REP_DB=WormBase Gene ID /WP=CE00638 /TR=Q18516 /GB=CAA82579.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=UMP synthase
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 92      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 73      6grp_total > 84      4grp_total > 48      6grp_highest_sub > In      6grp_high1_sub > 04_05      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1093
1 2 3 4 range
A 344.5
(-3)
P 		1043.8
(1)
P 		1400.8
(3)
P 		627.5
(-1.4)
P 		1056
B 367.6
(-3)
P 		899.8
(0.4)
P 		1313.7
(3)
P 		486.7
(-2.2)
P 		946
C 307.8
(-3)
P 		931
(0.7)
P 		1309.9
(3)
P 		516.4
(-1.8)
P 		1002
avr 340
(-3) 		958.2
(0.7) 		1341.5
(3) 		543.5
(-1.8) 		1002

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 527
1 2 3 4 5 6 range
A 255.8
(-3)
P 		395.4
(-1)
P 		448.9
(-0.2)
P 		599.4
(1.9)
P 		672.8
(3)
P 		610.6
(2.1)
P 		417
B 263.9
(-3)
P 		455.6
(-0.5)
P 		505.7
(0.1)
P 		524.6
(0.4)
P 		728.7
(3)
P 		527.6
(0.4)
P 		465
C 235.9
(-3)
P 		386.8
(-1.3)
P 		421.9
(-0.9)
P 		450.6
(-0.6)
P 		763.1
(3)
P 		526.5
(0.3)
P 		527
avr 251.9
(-3) 		412.6
(-0.9) 		458.8
(-0.4) 		524.9
(0.5) 		721.5
(3) 		554.9
(0.9) 		470
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 369
1 2 3 4 range
A 125.4
(-2.3)
P 		226.6
(-0.1)
P 		366.2
(3)
P 		91.9
(-3)
P 		274
B 117.2
(-2.6)
P 		222.2
(0.5)
P 		304.4
(3)
P 		103.7
(-3)
P 		201
C 101.9
(-2.8)
P 		267.7
(-0.1)
P 		456.5
(3)
P 		87.1
(-3)
P 		369
avr 114.8
(-2.6) 		238.8
(0.1) 		375.7
(3) 		94.2
(-3) 		282

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 249
1 2 3 4 5 6 range
A 47.2
(-3)
P 		140.6
(0.6)
P 		97.8
(-1.1)
P 		152
(1)
P 		203
(3)
P 		148.7
(0.9)
P 		156
B 91.8
(-3)
P 		151.7
(-1.2)
P 		122.8
(-2.1)
P 		138.9
(-1.6)
P 		296.1
(3)
P 		196.7
(0.1)
P 		204
C 87.4
(-3)
P 		118
(-1.8)
P 		107.4
(-2.2)
P 		90.6
(-2.9)
P 		246.9
(3)
P 		176.3
(0.3)
P 		160
avr 75.5
(-3) 		136.8
(-0.9) 		109.3
(-1.8) 		127.2
(-1.2) 		248.7
(3) 		173.9
(0.4) 		173
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188749_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6251
Sequence Type Exemplar sequence
Representative Public ID T07C4.1 NCBI
Target Description T07C4.1 /REP_DB=WormBase Gene ID /WP=CE00638 /TR=Q18516 /GB=CAA82579.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=UMP synthase
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_066890(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066890 NCBI Caenorhabditis elegans T07C4.1 (T07C4.1) mRNA, complete cds. 11/11 None
GENEFINDER00000030171 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10355854:10357286:-1 11/11 None
T07C4.1.1 ENSEMBL cdna:known chromosome:CEL140:III:10355685:10357534:-1 gene:T07C4.1 11/11 None
T07C4.1.2 ENSEMBL cdna:known chromosome:CEL140:III:10355733:10357536:-1 gene:T07C4.1 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
chrIII:10355849-10357525(-) 100.0 100.0
Public Domain and Genome References
Gene Title UMP synthase
Ensembl T07C4.1
Entrez Gene 176453 Entrez gene
SwissProt Q18516 EMBL-EBI
WormBase CE00638 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6207 'de novo' pyrimidine base biosynthesis inferred from electronic annotation QuickGO AmiGO
6221 pyrimidine nucleotide biosynthesis inferred from electronic annotation QuickGO AmiGO
9116 nucleoside metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4588 orotate phosphoribosyltransferase activity inferred from electronic annotation QuickGO AmiGO
4590 orotidine-5'-phosphate decarboxylase activity inferred from electronic annotation QuickGO AmiGO
16740 transferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA84708 Hypothetical protein T07C4.1 [Caenorhabditis elegans] emb|CAA82579.1| Hypothetical protein T07C4.1 [Caenorhabditis elegans] ref|NP_499291.1| T07C4.1 [Caenorhabditis elegans] 0.0
blast CAE56761 Hypothetical protein CBG24564 [Caenorhabditis briggsae] 0.0
blast CAA46253 uridine 5-monophosphate synthase [Bos taurus] ref|NP_803474.1| uridine monophosphate synthetase [orotate phosphoribosyl transferase and orotidine-5'-decarboxylase] [Bos taurus] sp|P31754|PYR5_BOVIN Uridine 5'-monophosphate synthase (UMP synthase) [Includes: Orotate phosphoribosyltransferase (OPRtase); Orotidine 5'-phosphate decarboxylase (OMPdecase)] 2.0E-84
Protein Domains
Database ID Description E-Value
Pfam IPR001754 EMBL-EBI Orotidine 5-phosphate decarboxylase 1.8E-64
Pfam IPR000836 EMBL-EBI Phosphoribosyltransferase 5.6E-32
Pfam IPR001754 EMBL-EBI Orotidine 5-phosphate decarboxylase 1.8E-64
Pfam IPR000836 EMBL-EBI Phosphoribosyltransferase 1.6E-26
Sequence
Target Sequence 
>C. ELEGANS:188749_S_AT
gctggcgatcaagcttcacgccgacgctatcaccgatttcaacgaggaattcacgaggaa
gctgacgacgatggcaaatgatatggactttatcattttcgaggatcggaagtttggcga
cactggaaacacgaaccttcttcagctcactggagcccagaaaatcgccaactgggcgga
tgttgtgactgttcatgccgtacaaggaagtgacagcattgcaggagtcttcaggaagct
cgccaaagatccgacttacaggctcagtggagttctcctcatcgcgcagctcagcaccaa
aggatctttgactgcgctggaaggatacaccgagaccgccgtcaagattgccaacgagaa
tcgtgacgtgatttctggattcatcactcagacgagagtgtctgcttgctcggatcttct
caattggacgcccggtgtgaatctcgacgcgaaatccgactcggccggtcagcagtggag
aggtgtcgacgaggcgatcgaagtacagcagaacgacatcatcatcgtcggaagaggcgt
cacgtcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGGCGATCAAGCTTCACGCCGAC 100 295 879 Antisense
ACTGGAAACACGAACCTTCTTCAGC 25 97 1000 Antisense
CTTCTTCAGCTCACTGGAGCCCAGA 685 219 1015 Antisense
GATGTTGTGACTGTTCATGCCGTAC 370 409 1057 Antisense
GAAGCTCGCCAAAGATCCGACTTAC 182 339 1113 Antisense
CTGGAAGGATACACCGAGACCGCCG 524 241 1195 Antisense
GACGAGAGTGTCTGCTTGCTCGGAT 70 377 1269 Antisense
TGCTCGGATCTTCTCAATTGGACGC 342 579 1285 Antisense
TGAATCTCGACGCGAAATCCGACTC 223 571 1316 Antisense
GGCCGGTCAGCAGTGGAGAGGTGTC 530 541 1341 Antisense
ATCGTCGGAAGAGGCGTCACGTCGT 521 35 1402 Antisense
Sequence Source Affymetrix Proprietary Database