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[189950_at] AMP-binding protein

Description T20F7.7 /REP_DB=WormBase Gene ID /WP=CE13842 /TR=O02171 /GB=AAK18982.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=AMP-binding protein
Cluster 4grp_high_8_8 > 12      6grp_total > 21      4grp_total > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 47.2
(-0.6)
A 		19.6
(-3)
A 		55.5
(0.1)
P 		88.2
(3)
P 		69
B 65.1
(-0.2)
P 		62.7
(-0.8)
P 		53.6
(-3)
A 		78.3
(3)
P 		25
C 58.9
(0.2)
A 		56.1
(-0.1)
A 		32
(-3)
A 		82.5
(3)
P 		51
avr 57.1
(-1.2) 		46.1
(-3) 		47
(-2.9) 		83
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 34.8
(-0.9)
A 		70.8
(3)
P 		47.9
(0.5)
M 		53.1
(1.1)
A 		53.1
(1.1)
P 		15.1
(-3)
A 		56
B 55.8
(0.9)
P 		51.1
(0.3)
P 		72.8
(3)
P 		24.5
(-3)
A 		58.1
(1.2)
M 		42.1
(-0.8)
P 		48
C 35.2
(-1.3)
A 		49.8
(1.9)
P 		54.8
(3)
A 		51
(2.2)
A 		27.7
(-3)
A 		50
(1.9)
P 		27
avr 41.9
(-1.4) 		57.2
(2.7) 		58.5
(3) 		42.9
(-1.1) 		46.3
(-0.2) 		35.7
(-3) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 17.2
(3)
A 		4.2
(-3)
A 		14.5
(1.8)
P 		12.9
(1)
P 		13
B 20.8
(3)
P 		15.5
(-0.8)
P 		12.4
(-3)
A 		16.7
(0.1)
P 		8
C 19.5
(3)
A 		16.1
(0.6)
A 		11.1
(-3)
A 		13.9
(-1)
P 		8
avr 19.2
(3) 		11.9
(-3) 		12.7
(-2.3) 		14.5
(-0.9) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 6.4
(-2.2)
A 		25.2
(3)
P 		10.4
(-1.1)
M 		13.5
(-0.3)
A 		16
(0.4)
P 		3.7
(-3)
A 		22
B 19.4
(1.5)
P 		17
(0.7)
P 		17.7
(0.9)
P 		6.5
(-3)
A 		23.6
(3)
M 		15.7
(0.2)
P 		17
C 13
(0.1)
A 		15.2
(1.8)
P 		14
(0.9)
A 		10.3
(-2)
A 		9
(-3)
A 		16.7
(3)
P 		8
avr 12.9
(-1.1) 		19.1
(3) 		14
(-0.4) 		10.1
(-3) 		16.2
(1.1) 		12
(-1.7) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189950_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17914
Sequence Type Exemplar sequence
Representative Public ID T20F7.7 NCBI
Target Description T20F7.7 /REP_DB=WormBase Gene ID /WP=CE13842 /TR=O02171 /GB=AAK18982.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=AMP-binding protein
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_078327(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078327 NCBI Caenorhabditis elegans T20F7.7 (T20F7.7) mRNA, complete cds. 9/11 None
SNAP00000037351 ENSEMBL cdna:SNAP chromosome:CEL140:X:16878061:16879524:-1 9/11 None
GENEFINDER00000037356 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16878061:16880384:-1 9/11 None
T20F7.7 ENSEMBL cdna:known chromosome:CEL140:X:16878061:16880384:-1 gene:T20F7.7 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000015565 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:16878060-16880384(-) 100.0 100.0
Public Domain and Genome References
Gene Title AMP-binding protein
Ensembl T20F7.7
Entrez Gene 188659 Entrez gene
SwissProt O02171 EMBL-EBI
WormBase CE35779 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 AAK18982 Hypothetical protein T20F7.7 [Caenorhabditis elegans] ref|NP_510728.2| T20F7.7 [Caenorhabditis elegans] 0.0
blast AAK18982 Hypothetical protein T20F7.7 [Caenorhabditis elegans] ref|NP_510728.2| T20F7.7 [Caenorhabditis elegans] 1.0E-172
blast AAY46304 AMP-binding protein [Caenorhabditis remanei] 1.0E-95
blast AAY46304 AMP-binding protein [Caenorhabditis remanei] 3.0E-95
blast XP_394579 PREDICTED: similar to GA19414-PA [Apis mellifera] 4.0E-57
Protein Families
Method ID Description E-Value
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 5.0E-84
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-135
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 9.8E-90
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.9E-51
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 9.8E-90
Sequence
Target Sequence 
>C. ELEGANS:189950_AT
gtggacatattctgccaggctttgaaacaaagctttttgaacatccaactggagaaactg
aactttggttgaaatccgatgcaataatgaaggcctataagaatgggacaccaaatctcg
acgaggatgattggctacataccggggacattgtaaccgaaaaaggagggttcttctatg
tagtggacagaatgaaggatttgatcaaattgaatggctatcaagtgtcacctacggaaa
ttgtgagttgtacagtttttccagcagcaaaaaggatttttgcaatttttcattttgttt
ttttttatttcaaatgggagataagaattgatttggtgtctcttcaatcttacaatttcg
ttcaggaaaatgtaattctaaccctaccaaaagttgcggaagtagccgtcgtaggaattg
aagacgagctttgtggacagctcccaaaagcctatattgtactcgagaagaatgctgacg
agcttttattcttaaaacatttggagcatacaatgaaagaaaagttgtctgcggtgaagc
agttgcgtggtggagtatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGACATATTCTGCCAGGCTTTGA 146 491 1052 Antisense
ATGGGACACCAAATCTCGACGAGGA 400 49 1154 Antisense
GATTGGCTACATACCGGGGACATTG 156 431 1180 Antisense
GGAGGGTTCTTCTATGTAGTGGACA 504 515 1216 Antisense
GAATGGCTATCAAGTGTCACCTACG 247 333 1263 Antisense
GAGTTGTACAGTTTTTCCAGCAGCA 685 397 1296 Antisense
GGTGTCTCTTCAATCTTACAATTTC 515 499 1386 Antisense
GACGAGCTTTGTGGACAGCTCCCAA 32 379 1474 Antisense
GACAGCTCCCAAAAGCCTATATTGT 45 369 1487 Antisense
ATGCTGACGAGCTTTTATTCTTAAA 108 43 1523 Antisense
GAAGCAGTTGCGTGGTGGAGTATCA 96 341 1587 Antisense
Sequence Source Affymetrix Proprietary Database