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[192239_at] Eukaryotic initiation factor 4A

Description F57B9.3 /REP_DB=WormBase Gene ID /WP=CE01338 /TR=Q20935 /GB=AAA21169.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Eukaryotic initiation factor 4A
Cluster 6grp_high1_10_10 > 70      6grp_total > 81      4grp_total > 11      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 104.6
(-2.3)
P 		110.9
(-1)
A 		101.3
(-3)
M 		129.8
(3)
P 		29
B 85.4
(-2.9)
P 		84
(-3)
A 		102.7
(-1.9)
A 		183.9
(3)
P 		100
C 116.6
(-0.1)
P 		114.7
(-0.3)
A 		86.8
(-3)
P 		147.9
(3)
P 		61
avr 102.2
(-2.4) 		103.2
(-2.3) 		96.9
(-3) 		153.9
(3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 177.5
(0.3)
P 		163.9
(-0.1)
P 		93.8
(-2.4)
P 		258.6
(3)
P 		160.7
(-0.2)
P 		76.5
(-3)
A 		182
B 116.9
(-0.2)
P 		140.8
(1.6)
P 		146.4
(2)
P 		159.6
(3)
P 		92.1
(-2.1)
P 		80.6
(-3)
P 		79
C 122.6
(-0.5)
P 		124.8
(-0.4)
P 		144.6
(0.6)
P 		197
(3)
P 		141.3
(0.4)
P 		68.6
(-3)
P 		128
avr 139
(-0.1) 		143.2
(0.1) 		128.3
(-0.5) 		205.1
(3) 		131.4
(-0.4) 		75.2
(-3) 		130
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 38.1
(3)
P 		24.1
(-1.4)
A 		26.5
(-0.6)
M 		19
(-3)
P 		19
B 27.2
(-0.9)
P 		20.7
(-3)
A 		23.8
(-2)
A 		39.2
(3)
P 		19
C 38.6
(3)
P 		33
(0.5)
A 		30.2
(-0.7)
P 		24.9
(-3)
P 		14
avr 34.6
(3) 		25.9
(-3) 		26.8
(-2.4) 		27.7
(-1.8) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 32.7
(-1.2)
P 		58.3
(2.1)
P 		20.4
(-2.8)
P 		65.6
(3)
P 		48.5
(0.8)
P 		18.6
(-3)
A 		47
B 40.7
(0.8)
P 		46.9
(3)
P 		35.5
(-1.1)
P 		42.3
(1.4)
P 		37.4
(-0.4)
P 		30.1
(-3)
P 		17
C 45.5
(2.9)
P 		38.1
(1)
P 		36.8
(0.6)
P 		39.6
(1.4)
P 		45.7
(3)
P 		23
(-3)
P 		23
avr 39.6
(0.7) 		47.8
(2.7) 		30.9
(-1.3) 		49.2
(3) 		43.9
(1.7) 		23.9
(-3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192239_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7804
Sequence Type Exemplar sequence
Representative Public ID F57B9.3 NCBI
Target Description F57B9.3 /REP_DB=WormBase Gene ID /WP=CE01338 /TR=Q20935 /GB=AAA21169.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Eukaryotic initiation factor 4A
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_066113(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066113 NCBI Caenorhabditis elegans F57B9.3 (F57B9.3) mRNA, complete cds. 11/11 A 
SNAP00000019900 ENSEMBL cdna:SNAP chromosome:CEL140:III:6939819:6941667:1 11/11 None
GENEFINDER00000019916 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6939819:6941667:1 11/11 None
F57B9.3 ENSEMBL cdna:known chromosome:CEL140:III:6940108:6941667:1 gene:F57B9.3 11/11 A 
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:6940106-6941666(+) 100.0 100.0
Public Domain and Genome References
Gene Title Eukaryotic initiation factor 4A
Ensembl F57B9.3
Entrez Gene 186440 Entrez gene
SwissProt Q20935 EMBL-EBI
WormBase CE01338 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA21169 Hypothetical protein F57B9.3 [Caenorhabditis elegans] ref|NP_498514.1| F57B9.3 [Caenorhabditis elegans] 0.0
blast CAA78102 unnamed protein product [Caenorhabditis elegans] gb|AAA21170.1| Initiation factor protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022623.1| INitiation Factor family member (inf-1) [Caenorhabditis elegans] sp|P27639|IF4A_CAEEL Eukaryotic initiation factor 4A (eIF4A) (eIF-4A) 1.0E-133
blast CAE70046 Hypothetical protein CBG16478 [Caenorhabditis briggsae] 1.0E-133
blast CAA78102 unnamed protein product [Caenorhabditis elegans] gb|AAA21170.1| Initiation factor protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022623.1| INitiation Factor family member (inf-1) [Caenorhabditis elegans] sp|P27639|IF4A_CAEEL Eukaryotic initiation factor 4A (eIF4A) (eIF-4A) 1.0E-125
blast CAE70046 Hypothetical protein CBG16478 [Caenorhabditis briggsae] 1.0E-125
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.3E-18
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.4E-53
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.3E-18
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.4E-53
Sequence
Target Sequence 
>C. ELEGANS:192239_AT
gtttcatgcgtgatccaatccgtattcttgtcaagaaggacgagctcacccttgaaggta
tcagacagttctacatcaacgttcaaaaggatgaatggaagtttaattgcctttgtgatc
ttcttaagacatccagagaaacgcaggctttaattttctgtaacactcggagaagggtca
cccagctcaccgagcagttgatgtccataccaataaaagtatcatgttttcatggaaata
tggaacacaatgaacgcgaggatatggtaaaagatttcaattcgagaaatactcgtgtac
tcgtcaccactgatcttatggcacgtggtatgaatattcgtaaatcactcattatcaact
acgatgtatctggaaatatggagaactacatgttacgaaatggaagacaaggaaattttg
gttcgaaaggacttcccatcagttttttcacagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTCATGCGTGATCCAATCCGTAT 33 451 554 Antisense
GTGATCCAATCCGTATTCTTGTCAA 131 485 563 Antisense
GTTTAATTGCCTTTGTGATCTTCTT 50 451 654 Antisense
GACATCCAGAGAAACGCAGGCTTTA 63 371 681 Antisense
GGCTTTAATTTTCTGTAACACTCGG 204 505 699 Antisense
CTCGGAGAAGGGTCACCCAGCTCAC 675 229 719 Antisense
CACCGAGCAGTTGATGTCCATACCA 187 201 741 Antisense
AGAAATACTCGTGTACTCGTCACCA 237 73 838 Antisense
GTCACCACTGATCTTATGGCACGTG 356 465 856 Antisense
TTTGGTTCGAAAGGACTTCCCATCA 291 665 970 Antisense
ACTTCCCATCAGTTTTTTCACAGAA 38 105 984 Antisense
Sequence Source Affymetrix Proprietary Database