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[192580_s_at] translation initiation factor (EIF)

Description D2085.3 /REP_DB=WormBase Gene ID /WP=CE03107 /TR=Q18994 /GB=CAA91063.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=translation initiation factor (EIF)
Cluster 6grp_highest_10_10 > 53      6grp_high1_10_10 > 35      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 71      6grp_total > 36      4grp_total > 60      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 321
1 2 3 4 range
A 406.7
(3)
P 		350.4
(1.5)
P 		375.1
(2.2)
P 		178.4
(-3)
P 		228
B 400.5
(2)
P 		354.1
(0.6)
P 		435.6
(3)
P 		234.3
(-3)
P 		201
C 359.9
(0.8)
P 		318.7
(0)
P 		478.7
(3)
P 		157.5
(-3)
P 		321
avr 389
(2) 		341.1
(0.8) 		429.8
(3) 		190.1
(-3) 		240

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 206
1 2 3 4 5 6 range
A 347
(3)
P 		347.5
(3)
P 		306.7
(-0.3)
P 		299.2
(-0.9)
P 		287
(-1.8)
P 		272.4
(-3)
P 		75
B 443.2
(3)
P 		441.1
(2.9)
P 		374.7
(0.7)
P 		328.6
(-0.8)
P 		263.9
(-3)
P 		341.6
(-0.4)
P 		179
C 397.1
(2)
P 		429.1
(3)
P 		315.3
(-0.6)
P 		388.2
(1.7)
P 		237.3
(-3)
P 		393.9
(1.9)
P 		192
avr 395.8
(2.6) 		405.9
(3) 		332.2
(-0.1) 		338.7
(0.2) 		262.7
(-3) 		336
(0.1) 		143
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 148.1
(3)
P 		76.1
(-0.5)
P 		98.1
(0.5)
P 		26.1
(-3)
P 		122
B 127.7
(3)
P 		87.5
(-0.1)
P 		100.9
(0.9)
P 		49.9
(-3)
P 		78
C 119.1
(1)
P 		91.6
(-0.2)
P 		166.8
(3)
P 		26.6
(-3)
P 		140
avr 131.6
(3) 		85.1
(0.1) 		121.9
(2.4) 		34.2
(-3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 64
(-3)
P 		123.6
(3)
P 		66.8
(-2.7)
P 		75.9
(-1.8)
P 		86.6
(-0.7)
P 		66.3
(-2.8)
P 		60
B 154.2
(3)
P 		146.8
(2.3)
P 		91
(-2.6)
P 		87
(-3)
P 		107.2
(-1.2)
P 		127.4
(0.6)
P 		67
C 147.2
(3)
P 		130.9
(1.6)
P 		80.3
(-2.7)
P 		78.1
(-2.9)
P 		76.8
(-3)
P 		131.8
(1.7)
P 		70
avr 121.8
(1.7) 		133.8
(3) 		79.4
(-3) 		80.3
(-2.9) 		90.2
(-1.8) 		108.5
(0.2) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192580_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2707
Sequence Type Exemplar sequence
Representative Public ID D2085.3 NCBI
Target Description D2085.3 /REP_DB=WormBase Gene ID /WP=CE03107 /TR=Q18994 /GB=CAA91063.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=translation initiation factor (EIF)
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_063440(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063440 NCBI Caenorhabditis elegans D2085.3 (D2085.3) mRNA, complete cds. 11/11 None
SNAP00000003892 ENSEMBL cdna:SNAP chromosome:CEL140:II:8659069:8664371:1 11/11 None
GENEFINDER00000003898 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8661802:8664371:1 11/11 None
D2085.3.2 ENSEMBL cdna:known chromosome:CEL140:II:8661791:8664637:1 gene:D2085.3 11/11 None
D2085.3.1 ENSEMBL cdna:known chromosome:CEL140:II:8661792:8664637:1 gene:D2085.3 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
chrII:8661798-8664368(+) 100.0 100.0
Public Domain and Genome References
Gene Title translation initiation factor (EIF)
Ensembl D2085.3
Entrez Gene 174387 Entrez gene
SwissProt Q18994 EMBL-EBI
WormBase CE03107 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259127_AT eIF4-gamma/eIF5/eIF2-epsilon domain-containing protein at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6446 regulation of translational initiation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3743 translation initiation factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91063 Hypothetical protein D2085.3 [Caenorhabditis elegans] ref|NP_495841.1| D2085.3 [Caenorhabditis elegans] 0.0
blast CAE57535 Hypothetical protein CBG00512 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 6.2
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 0.17
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 0.0060
Pfam IPR003307 EMBL-EBI eIF4-gamma/eIF5/eIF2-epsilon 2.0E-28
Pfam IPR007135 EMBL-EBI Autophagocytosis associated protein, C-terminal 5.6E-48
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 6.2
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 0.17
Pfam IPR001451 EMBL-EBI Bacterial transferase hexapeptide repeat 0.0060
Pfam IPR003307 EMBL-EBI eIF4-gamma/eIF5/eIF2-epsilon 2.0E-28
Sequence
Target Sequence 
>C. ELEGANS:192580_S_AT
gatgattctgaatccgaatattctgaatctgaagaagaagacgatggagtaggaaactca
actaaaatgttccatgatgaagttttagaatcaatgcagaaaattttggaatctgaaaat
tcgttgatgcggaatctcattttggaaatcaactcttcaaagttagcttgcaatgtaaca
atggacgaggttgctagaaatgtattcgctgcattcatgaaattgaaacataatcaagat
tttaataagatgaaagaacttattgttaaatggcaacctcttttcctgaactactataaa
acatcggcggaatcgctcaaagtaaaatctgcagatcaaaaacgatttgagttggattta
aaacggagatgccaaattcaacttcttcttgccattgaagacaaatttgatagagatgag
agttttggagtaaaagctcaggcattggttcactatttgtatcaagaagcagatatattg
gatgaagattcgattattgaatgggcagggtctattgcagaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATTCTGAATCCGAATATTCTG 106 411 1408 Antisense
GTTGATGCGGAATCTCATTTTGGAA 666 437 1530 Antisense
ATCAACTCTTCAAAGTTAGCTTGCA 384 27 1555 Antisense
GAGGTTGCTAGAAATGTATTCGCTG 443 403 1594 Antisense
GTATTCGCTGCATTCATGAAATTGA 369 453 1609 Antisense
TTGTTAAATGGCAACCTCTTTTCCT 507 675 1670 Antisense
CAACCTCTTTTCCTGAACTACTATA 150 187 1681 Antisense
AAACATCGGCGGAATCGCTCAAAGT 148 129 1706 Antisense
GCCAAATTCAACTTCTTCTTGCCAT 117 279 1778 Antisense
AAAGCTCAGGCATTGGTTCACTATT 478 123 1840 Antisense
GAATGGGCAGGGTCTATTGCAGAAG 104 333 1906 Antisense
Sequence Source Affymetrix Proprietary Database