[Home] | [Total List]

[192198_s_at] AMP-binding protein

Description C52B9.9 /REP_DB=WormBase Gene ID /WP=CE16940 /GEN=mec-18 /TR=O45873 /GB=AAK39217.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=AMP-binding protein
Cluster 6grp_high1_10_10 > 03      4grp_high_8_8 > 35      6grp_total > 24      4grp_total > 45      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 199.9
(2.5)
P 		204.7
(3)
P 		155.4
(-2.6)
P 		151.8
(-3)
A 		53
B 214.3
(3)
P 		213
(2.9)
P 		117.1
(-3)
A 		131
(-2.1)
P 		97
C 184
(3)
P 		164.2
(-0.5)
P 		150.3
(-3)
P 		160.6
(-1.2)
P 		34
avr 199.4
(3) 		194
(2.4) 		140.9
(-3) 		147.8
(-2.3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 127.8
(-0.9)
P 		187.7
(3)
P 		181.1
(2.6)
P 		104.4
(-2.4)
P 		95.2
(-3)
A 		106.2
(-2.3)
A 		93
B 273.4
(3)
P 		226.8
(1.4)
P 		175.3
(-0.4)
P 		152
(-1.2)
A 		101.3
(-3)
P 		110.4
(-2.7)
P 		172
C 228.8
(3)
P 		227.6
(2.9)
P 		146.3
(-1.2)
P 		129.7
(-2)
P 		109.9
(-3)
A 		113.2
(-2.8)
P 		119
avr 210
(2.8) 		214
(3) 		167.6
(0.5) 		128.7
(-1.6) 		102.1
(-3) 		109.9
(-2.6) 		112
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 72.8
(3)
P 		44.4
(-0.4)
P 		40.6
(-0.8)
P 		22.2
(-3)
A 		51
B 68.3
(3)
P 		52.6
(0.7)
P 		27.1
(-3)
A 		27.9
(-2.9)
P 		41
C 60.9
(3)
P 		47.2
(0.6)
P 		52.4
(1.5)
P 		27.1
(-3)
P 		34
avr 67.3
(3) 		48.1
(0.2) 		40
(-0.9) 		25.7
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 23.6
(-3)
P 		66.8
(3)
P 		39.4
(-0.8)
P 		26.5
(-2.6)
P 		28.7
(-2.3)
A 		25.9
(-2.7)
A 		43
B 95.1
(3)
P 		75.5
(0.9)
P 		42.6
(-2.7)
P 		40.3
(-3)
A 		41.1
(-2.9)
P 		41.1
(-2.9)
P 		55
C 84.8
(3)
P 		69.4
(1.4)
P 		37.2
(-1.9)
P 		26.1
(-3)
P 		35.6
(-2)
A 		37.9
(-1.8)
P 		59
avr 67.8
(2.6) 		70.6
(3) 		39.7
(-1.7) 		31
(-3) 		35.1
(-2.4) 		35
(-2.4) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192198_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16604
Sequence Type Exemplar sequence
Representative Public ID C52B9.9 NCBI
Target Description C52B9.9 /REP_DB=WormBase Gene ID /WP=CE16940 /GEN=mec-18 /TR=O45873 /GB=AAK39217.1 /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_076330(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076330 NCBI Caenorhabditis elegans MEChanosensory abnormality family member (mec-18) (mec-18) mRNA, complete cds. 11/11 None
SNAP00000014551 ENSEMBL cdna:SNAP chromosome:CEL140:X:4271262:4279186:-1 11/11 None
GENEFINDER00000014569 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4271262:4274284:-1 11/11 None
C52B9.9 ENSEMBL cdna:known chromosome:CEL140:X:4271208:4274164:-1 gene:C52B9.9 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
chrX:4271262-4274165(-) 100.0 100.0
Public Domain and Genome References
Gene Title AMP-binding protein
Gene Symbol mec-18
Ensembl C52B9.9
Entrez Gene 180701 Entrez gene
SwissProt O45873 EMBL-EBI
WormBase CE16940 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5623 cell inferred from direct assay 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 NP_508731 MEChanosensory abnormality family member (mec-18) [Caenorhabditis elegans] gb|AAK39217.3| Mechanosensory abnormality protein 18 [Caenorhabditis elegans] pir||T28932 probable 4-coumarate-CoA ligase (EC 6.2.1.12) - Caenorhabditis elegans 0.0
blast CAE68550 Hypothetical protein CBG14383 [Caenorhabditis briggsae] 0.0
blast NP_508732 TWiK family of potassium channels family member (twk-28) [Caenorhabditis elegans] gb|AAK39218.3| Twik family of potassium channels protein 28 [Caenorhabditis elegans] 0.0
blast AAQ96601 two-P domain K channel [Caenorhabditis elegans] 0.0
blast EAL41501 ENSANGP00000028839 [Anopheles gambiae str. PEST] ref|XP_560023.1| ENSANGP00000028839 [Anopheles gambiae str. PEST] 1.0E-58
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) 1.0E-120
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-143
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.8E-83
Pfam IPR005821 EMBL-EBI Ion transport protein 1.5E-13
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 3.4E-76
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.8E-83
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508731.3 1 290-312
C52B9.9 1 290-312
SNAP00000014551 7 58-80,174-196,203-225,294-316,328-345,350-372,748-770
GENEFINDER00000014569 1 330-352
Sequence
Target Sequence 
>C. ELEGANS:192198_S_AT
gtcaacccggtcagatcattgtgctcggaccacaagtatcgccgtgttactataaaaatc
caaaagctacgtctgaactttttgatgcaactggatttgttaaaacaggcgatgctgggt
tttatgacgaagttggaagaatttacgtactagatcgaatcaaggacattatcaaatgca
aaggaactatgatttgcccctcggaagtagaacttgttttacgagcacatgctggaatag
atgattgtgcagttgttggaagacaggatcatgttacaggagaagttcctgcagcgtttg
tggtgaagaacgctcagcatccacttttggcctccgcggaagttcggcagtatgtttctg
gaaaaattgcaactttcaaagagctgcgtggtggtgtgtttttcatctcggaaattccca
gaagtgtatgtggaaagattttgagacgaaaccttcgacaattctgggatcgagaacgaa
caaattccaaagtggacagtctaaccaacaaagatggagcaaaaacagctggtgccgcga
aaggagcacctgcaaagaaagttaacggctcgacaacaccatcgaggcgtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCAACCCGGTCAGATCATTGTGCT 330 463 1307 Antisense
TGCTCGGACCACAAGTATCGCCGTG 86 581 1328 Antisense
AGCTACGTCTGAACTTTTTGATGCA 612 79 1371 Antisense
CAGGCGATGCTGGGTTTTATGACGA 257 207 1412 Antisense
AAGGAACTATGATTTGCCCCTCGGA 683 159 1487 Antisense
GGTGAAGAACGCTCAGCATCCACTT 39 501 1608 Antisense
GCCTCCGCGGAAGTTCGGCAGTATG 655 281 1636 Antisense
TGGTGGTGTGTTTTTCATCTCGGAA 86 553 1695 Antisense
GACGAAACCTTCGACAATTCTGGGA 52 381 1751 Antisense
AAAACAGCTGGTGCCGCGAAAGGAG 404 123 1828 Antisense
GCTCGACAACACCATCGAGGCGTCC 337 299 1874 Antisense
Sequence Source Affymetrix Proprietary Database