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[173946_s_at] eukaryotic initiation factor 4E (EIF-4E)

Description C49373 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R04A9.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49373 /WB_GENE_ID=R04A9.4 /WP=CE04791 /CHR=X /FEA=Genomic Cluster /GEN=ife-2 /DEF=eukaryotic initiation factor 4E (EIF-4E); C.elegans cDNA clone yk469e7 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 42      6grp_total > 40      4grp_total > 49      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1315
1 2 3 4 range
A 987.2
(-3)
P 		2285.3
(3)
P 		1470.2
(-0.8)
P 		1047.5
(-2.7)
P 		1298
B 970.3
(-3)
P 		1433.3
(1.3)
P 		1610.9
(3)
P 		1130.2
(-1.5)
P 		641
C 971.9
(-3)
P 		1465.4
(2.9)
P 		1470.3
(3)
P 		1017.8
(-2.4)
P 		498
avr 976.5
(-3) 		1728
(3) 		1517.1
(1.3) 		1065.2
(-2.3) 		752

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 703
1 2 3 4 5 6 range
A 755.2
(0.6)
P 		901
(2.6)
P 		932.1
(3)
P 		882.5
(2.3)
P 		496.8
(-3)
P 		632.2
(-1.1)
P 		435
B 801.4
(-1)
P 		865.8
(-0.3)
P 		1199.4
(3)
P 		782.6
(-1.2)
P 		601.5
(-3)
P 		631.9
(-2.7)
P 		598
C 933.2
(3)
P 		765.4
(-0.7)
P 		791.7
(-0.1)
P 		799.1
(0.1)
P 		658.5
(-3)
P 		681.6
(-2.5)
P 		275
avr 829.9
(0.8) 		844.1
(1) 		974.4
(3) 		821.4
(0.6) 		585.6
(-3) 		648.6
(-2) 		389
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 359
1 2 3 4 range
A 359.4
(0.6)
P 		496.1
(3)
P 		384.3
(1)
P 		153.3
(-3)
P 		343
B 309.4
(0.1)
P 		354
(2.1)
P 		373.3
(3)
P 		240.8
(-3)
P 		133
C 321.7
(-0.4)
P 		421.3
(1.4)
P 		512.4
(3)
P 		171.6
(-3)
P 		341
avr 330.2
(0.6) 		423.8
(3) 		423.3
(3) 		188.6
(-3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 139.2
(-3)
P 		320.4
(3)
P 		203
(-0.9)
P 		223.8
(-0.2)
P 		149.9
(-2.6)
P 		153.9
(-2.5)
P 		181
B 278.8
(2.1)
P 		288.2
(2.8)
P 		291.2
(3)
P 		207.3
(-3)
P 		244.4
(-0.3)
P 		235.6
(-1)
P 		84
C 345.9
(3)
P 		233.5
(-0.6)
P 		201.5
(-1.7)
P 		160.7
(-3)
P 		213.1
(-1.3)
P 		228.2
(-0.8)
P 		185
avr 254.6
(1.1) 		280.7
(3) 		231.9
(-0.5) 		197.3
(-3) 		202.5
(-2.6) 		205.9
(-2.4) 		83
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173946_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26219
Sequence Type Exemplar sequence
Representative Public ID C49373 NCBI
Target Description C49373 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R04A9.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49373 /WB_GENE_ID=R04A9.4 /WP=CE04791 /CHR=X /FEA=Genomic Cluster /GEN=ife-2 /DEF=eukaryotic initiation factor 4E (EIF-4E); C.elegans cDNA clone yk469e7 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_075693(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075693 NCBI Caenorhabditis elegans Initiation Factor 4E (eIF4E) family member (ife-2) (ife-2) mRNA, complete cds. 11/11 None
SNAP00000016336 ENSEMBL cdna:SNAP chromosome:CEL140:X:381528:382704:-1 11/11 None
GENEFINDER00000016352 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:381528:382704:-1 11/11 None
R04A9.4 ENSEMBL cdna:known chromosome:CEL140:X:381409:382861:-1 gene:R04A9.4 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:381528-382705(-) 100.0 100.0
Public Domain and Genome References
Gene Title eukaryotic initiation factor 4E (EIF-4E)
Gene Symbol ife-2
Ensembl R04A9.4
Entrez Gene 180393 Entrez gene
SwissProt Q21693 EMBL-EBI
WormBase CE04791 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6413 translational initiation inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
3743 translation initiation factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_508094 Initiation Factor 4E (eIF4E) family member (ife-2) [Caenorhabditis elegans] gb|AAA83286.1| Initiation factor 4e (eif4e) family protein 2 [Caenorhabditis elegans] sp|Q21693|IF4E2_CAEEL Eukaryotic translation initiation factor 4E-2 (eIF4E-2) (eIF-4E-2) (mRNA cap-binding protein) (eIF-4F 25 kDa subunit) 1.0E-134
blast CAE63684 Hypothetical protein CBG08188 [Caenorhabditis briggsae] 2.0E-95
blast CAB04454 Hypothetical protein F53A2.6 [Caenorhabditis elegans] ref|NP_499751.2| Initiation Factor 4E (eIF4E) family member (ife-1) [Caenorhabditis elegans] sp|O45551|IF4E1_CAEEL Eukaryotic translation initiation factor 4E-1 (eIF4E-1) (eIF-4E-1) (mRNA cap-binding protein) (eIF-4F 25 kDa subunit) 3.0E-82
Protein Domains
Database ID Description E-Value
Pfam IPR001040 EMBL-EBI Eukaryotic translation initiation factor 4E (eIF-4E) 1.1E-125
Sequence
Target Sequence 
>C. ELEGANS:173946_S_AT
gaaacgcaactggacctggtggtatctgaacgacgagcgcaacaaatcgtgggaggagcg
tctcaagaacgtgaaaacctttagcagcgtcggagagttctgggcacttcacgactctat
taagccgccaagtgggctcaatccaccatcagattataatgttttcagagatggaattga
gccaatgtgggaggtgccacaaaatcagaatggaggaagatggcttatcactatcgagaa
aggacgcactccggaaatcatggacactatctggaccgaaattcttatggcgatgatcgg
agagcagttttccgacgatatcgaaagtctgtgcggaattgtctgcaacgtccgtggaaa
gggctcaaaaatctcagtttggactacaaacagtgctgatgacggggcaaatctgagaat
tggaggcgtcttgaagcaagtgctcaacaatgcaagcatgatccatcagagaccactcta
cgacgttctccgttatgaggatcatgagagttgccagaagaagacgagctcaggagtcaa
agcgaagcacgccatttacgcggtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACGCAACTGGACCTGGTGGTAT 652 357 70 Antisense
TGGTGGTATCTGAACGACGAGCGCA 460 553 86 Antisense
AGCAGCGTCGGAGAGTTCTGGGCAC 29 77 152 Antisense
TTCACGACTCTATTAAGCCGCCAAG 274 683 177 Antisense
CCAAGTGGGCTCAATCCACCATCAG 113 277 197 Antisense
AATCATGGACACTATCTGGACCGAA 290 171 325 Antisense
GAGAGCAGTTTTCCGACGATATCGA 541 393 369 Antisense
GGAATTGTCTGCAACGTCCGTGGAA 151 535 404 Antisense
GCATGATCCATCAGAGACCACTCTA 232 309 525 Antisense
ACTCTACGACGTTCTCCGTTATGAG 466 99 544 Antisense
AGCGAAGCACGCCATTTACGCGGTG 232 71 610 Antisense
Sequence Source Affymetrix Proprietary Database