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[189748_s_at] AMP-binding enzyme

Description Y76A2B.3 /REP_DB=WormBase Gene ID /WP=CE19275 /TR=Q9XWD1 /GB=CAA21744.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=AMP-binding enzyme
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_highest_8_8 > 13      4grp_high_8_8 > 22      6grp_highest_nonorm > 67      6grp_total > 37      4grp_total > 16      6grp_highest_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3021
1 2 3 4 range
A 1940.9
(-3)
P 		3138.9
(0.2)
P 		3037.5
(-0.1)
P 		4205.7
(3)
P 		2265
B 2099.7
(-3)
P 		3052.3
(-1)
P 		3504.7
(-0.1)
P 		4961.8
(3)
P 		2862
C 2168
(-3)
P 		2794
(-1.3)
P 		3154.8
(-0.3)
P 		4389.9
(3)
P 		2222
avr 2069.5
(-3) 		2995.1
(-0.7) 		3232.3
(-0.2) 		4519.1
(3) 		2450

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1068
1 2 3 4 5 6 range
A 2187.6
(3)
P 		1777.1
(-0.1)
P 		1547.3
(-1.8)
P 		1394.9
(-3)
P 		1493.5
(-2.3)
P 		1681.1
(-0.8)
P 		793
B 2196
(3)
P 		1718.2
(-1.7)
P 		1717
(-1.7)
P 		1585.4
(-3)
P 		1597.7
(-2.9)
P 		1799.2
(-0.9)
P 		611
C 1782.3
(3)
P 		1769.7
(2.9)
P 		1429.3
(-0.2)
P 		1127.6
(-3)
P 		1310.1
(-1.3)
P 		1783.6
(3)
P 		656
avr 2055.3
(3) 		1755
(0.4) 		1564.5
(-1.3) 		1369.3
(-3) 		1467.1
(-2.1) 		1754.6
(0.4) 		686
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 484
1 2 3 4 range
A 706.7
(0.1)
P 		681.4
(-0.8)
P 		794.1
(3)
P 		615.6
(-3)
P 		179
B 669.6
(-3)
P 		753.8
(-1.7)
P 		812.1
(-0.8)
P 		1057.4
(3)
P 		388
C 717.7
(-3)
P 		803.3
(-1.7)
P 		1099.5
(3)
P 		740.2
(-2.6)
P 		382
avr 698
(-3) 		746.2
(-1.6) 		901.9
(3) 		804.4
(0.1) 		204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 537
1 2 3 4 5 6 range
A 403.3
(-1.7)
P 		632
(3)
P 		337
(-3)
P 		353.8
(-2.7)
P 		450.7
(-0.7)
P 		409.3
(-1.5)
P 		295
B 764.1
(3)
P 		571.9
(-0.3)
P 		416.9
(-3)
P 		419.9
(-2.9)
P 		649.1
(1)
P 		670.9
(1.4)
P 		347
C 660.6
(3)
P 		540
(1.3)
P 		363.8
(-1.1)
P 		226.8
(-3)
P 		423.9
(-0.3)
P 		597.1
(2.1)
P 		434
avr 609.3
(3) 		581.3
(2.4) 		372.6
(-2.1) 		333.5
(-3) 		507.9
(0.8) 		559.1
(1.9) 		276
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189748_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6473
Sequence Type Exemplar sequence
Representative Public ID Y76A2B.3 NCBI
Target Description Y76A2B.3 /REP_DB=WormBase Gene ID /WP=CE19275 /TR=Q9XWD1 /GB=CAA21744.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=AMP-binding enzyme
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_067398(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067398 NCBI Caenorhabditis elegans Y76A2B.3 (Y76A2B.3) mRNA, complete cds. 11/11 None
SNAP00000001230 ENSEMBL cdna:SNAP chromosome:CEL140:III:13539723:13543045:-1 11/11 None
GENEFINDER00000001235 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13539723:13543045:-1 11/11 None
Y76A2B.3 ENSEMBL cdna:known chromosome:CEL140:III:13539657:13543050:-1 gene:Y76A2B.3 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:13539718-13543041(-) 100.0 100.0
Public Domain and Genome References
Gene Title AMP-binding enzyme
Ensembl Y76A2B.3
Entrez Gene 176785 Entrez gene
SwissProt Q9XWD1 EMBL-EBI
WormBase CE19275 Wormbase
Functional Annotations
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
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21744 Hypothetical protein Y76A2B.3 [Caenorhabditis elegans] ref|NP_499799.1| Y76A2B.3 [Caenorhabditis elegans] 0.0
blast CAE69260 Hypothetical protein CBG15311 [Caenorhabditis briggsae] 0.0
blast CAG06540 unnamed protein product [Tetraodon nigroviridis] 1.0E-165
Protein Families
Method ID Description E-Value
ec AC2L_HUMAN (Q9NUB1) Acetyl-coenzyme A synthetase 2-like, mitochondrial precursor (EC 6.2.1.1) (Acetate--CoA ligase 2) (Acetyl-CoA synthetase 2) 3.0E-84
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.4E-36
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 3.0E-48
Sequence
Target Sequence 
>C. ELEGANS:189748_S_AT
ggggatgtgccggatttgaactactttgcgaaggatggaaaaggagagatccgaatcaag
ggaccatgtgtgacgaaagggtactacaaggatccagagagaaccgccgagttgtttgat
gaagagggattcctgcaaaccggagacatcggagagatgcttccaaacggaactattcga
atcattgaccgaaagaagcacattttcaaactggcgcagggagaatacgtggcaccagaa
aaaattgagcaggtctacattaggacacccgttgtgcaacaggtctatgtcgatggagat
agcttggaaagatggctcatcgctgttgtcgtgccagaacccgatgtgcttaaagaatgg
aatgataaacaaggatccggatcaagaaaaattgaagaaatctgcaatgacgagaaggct
aaggagttcgtgctcagtgagctgcatgcaattggaaaagctaacaagttgaattctatc
gagcaagttaaaaaagtgatcttaacgtctgacacgtttactgtcgaaaatggacttcta
accccaacgctgaaagcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGGATGTGCCGGATTTGAACTACT 435 497 1447 Antisense
GATCCAGAGAGAACCGCCGAGTTGT 564 415 1537 Antisense
GGGATTCCTGCAAACCGGAGACATC 91 495 1572 Antisense
AGCACATTTTCAAACTGGCGCAGGG 43 77 1643 Antisense
GCAGGTCTACATTAGGACACCCGTT 603 311 1695 Antisense
GGACACCCGTTGTGCAACAGGTCTA 545 523 1709 Antisense
AAAGATGGCTCATCGCTGTTGTCGT 136 123 1754 Antisense
TCGTGCCAGAACCCGATGTGCTTAA 486 605 1775 Antisense
GAAGGCTAAGGAGTTCGTGCTCAGT 294 333 1860 Antisense
GTGCTCAGTGAGCTGCATGCAATTG 87 481 1876 Antisense
CTTCTAACCCCAACGCTGAAAGCAA 622 219 1981 Antisense
Sequence Source Affymetrix Proprietary Database