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[173875_at] initiation factor 5A

Description AV193248 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F54C9.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV193248 /WB_GENE_ID=F54C9.1 /WP=CE02249 /CHR=2 /FEA=Genomic Cluster /DEF=initiation factor 5A; Caenorhabditis elegans cDNA clone:yk615a6 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 11      4grp_highest_8_8 > 27      4grp_high_8_8 > 63      6grp_highest_nonorm > 16      6grp_total > 23      4grp_total > 56      6grp_cgc > 60      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3796
1 2 3 4 range
A 12240.3
(0.6)
P 		11288.3
(-1.8)
P 		13248.8
(3)
P 		10775.9
(-3)
P 		2473
B 11404.6
(-2)
P 		12074
(-0.8)
P 		14380.8
(3)
P 		10775.1
(-3)
P 		3606
C 11423.6
(-0.3)
P 		10584.6
(-3)
P 		12423.7
(3)
P 		10715.9
(-2.6)
P 		1839
avr 11689.5
(-0.8) 		11315.6
(-1.7) 		13351.1
(3) 		10755.6
(-3) 		2596

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5024
1 2 3 4 5 6 range
A 9978.3
(3)
P 		7453.3
(-0.2)
P 		7605.1
(0)
P 		6400.7
(-1.5)
P 		6822.7
(-1)
P 		5217.9
(-3)
P 		4760
B 8794.1
(1.7)
P 		7977.3
(0.6)
P 		9819.4
(3)
P 		7609.4
(0.1)
P 		5610.6
(-2.5)
P 		5204.4
(-3)
P 		4615
C 7323.7
(1.1)
P 		8043.7
(2.3)
P 		7624.3
(1.6)
P 		8435.4
(3)
P 		5061.8
(-2.8)
P 		4954.2
(-3)
P 		3481
avr 8698.7
(3) 		7824.8
(1.5) 		8349.6
(2.4) 		7481.8
(1) 		5831.7
(-1.8) 		5125.5
(-3) 		3573
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2879
1 2 3 4 range
A 4456.7
(3)
P 		2450.4
(-1.2)
P 		3463.5
(0.9)
P 		1577.4
(-3)
P 		2879
B 3636.8
(3)
P 		2982
(0.1)
P 		3332.4
(1.6)
P 		2296.2
(-3)
P 		1341
C 3781.5
(1.7)
P 		3043.1
(-0.1)
P 		4330
(3)
P 		1806.9
(-3)
P 		2523
avr 3958.3
(3) 		2825.2
(-0.3) 		3708.6
(2.3) 		1893.5
(-3) 		2065

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1790
1 2 3 4 5 6 range
A 1839.4
(-0.5)
P 		2650.8
(3)
P 		1656.2
(-1.3)
P 		1623.4
(-1.5)
P 		2058.8
(0.4)
P 		1270.4
(-3)
P 		1380
B 3059.9
(3)
P 		2655.3
(0.8)
P 		2384.5
(-0.6)
P 		2015.5
(-2.6)
P 		2279.5
(-1.2)
P 		1940.7
(-3)
P 		1119
C 2714.6
(3)
P 		2454.4
(1.6)
P 		1940.5
(-1.3)
P 		1696.4
(-2.7)
P 		1637.9
(-3)
P 		1658.5
(-2.9)
P 		1077
avr 2538
(2.7) 		2586.8
(3) 		1993.7
(-0.7) 		1778.4
(-2) 		1992.1
(-0.7) 		1623.2
(-3) 		964
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173875_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23358
Sequence Type Exemplar sequence
Representative Public ID AV193248 NCBI
Target Description AV193248 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F54C9.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV193248 /WB_GENE_ID=F54C9.1 /WP=CE02249 /CHR=2 /FEA=Genomic Cluster /DEF=initiation factor 5A; Caenorhabditis elegans cDNA clone:yk615a6 : 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_063406(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063406 NCBI Caenorhabditis elegans Initiation Factor Five (eIF-5A) homologs family member (iff-2) (iff-2) mRNA, complete cds. 11/11 A 
F54C9.1.3 ENSEMBL cdna:known chromosome:CEL140:II:8559333:8560888:-1 gene:F54C9.1 11/11 None
F54C9.1.1 ENSEMBL cdna:known chromosome:CEL140:II:8559333:8561242:-1 gene:F54C9.1 11/11 A 
F54C9.1.2 ENSEMBL cdna:known chromosome:CEL140:II:8559333:8560886:-1 gene:F54C9.1 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:8559340-8560875(-) 100.0 100.0
Public Domain and Genome References
Gene Title initiation factor 5A
Gene Symbol iff-2
Ensembl F54C9.1
Entrez Gene 174367 Entrez gene
SwissProt Q20751 EMBL-EBI
WormBase CE02249 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262615_AT eukaryotic translation initiation factor 5A-1 / eIF-5A 1 at
ATGENOME1:13072_AT eukaryotic translation initiation factor 5A-1 / eIF-5A 1 at
HUGENEFL:S72024_S_AT similar to Eukaryotic translation initiation factor 5A (eIF-5A) (eIF-4D) (Rev-binding factor) hs
YEAST_2:1779407_AT Translation initiation factor eIF-5A, promotes formation of the first peptide bond; similar to and functionally redundant with Hyp2p; undergoes an essential hypusination modification; expressed under anaerobic conditions Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6413 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 CAA90247 Hypothetical protein F54C9.1 [Caenorhabditis elegans] ref|NP_495807.1| Initiation Factor Five (eIF-5A) homologs family member (iff-2) [Caenorhabditis elegans] sp|Q20751|IF5A2_CAEEL Eukaryotic translation initiation factor 5A-2 (eIF-5A-2) (Initiation factor five protein 2) 1.0E-90
blast CAE57587 Hypothetical protein CBG00567 [Caenorhabditis briggsae] 3.0E-82
blast CAA81597 Hypothetical protein T05G5.10 [Caenorhabditis elegans] ref|NP_499152.2| Initiation Factor Five (eIF-5A) homologs family member (iff-1) [Caenorhabditis elegans] 2.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR001884 EMBL-EBI Eukaryotic initiation factor 5A hypusine (eIF-5A) 1.8E-33
Pfam IPR005824 EMBL-EBI KOW 2.9E-8
Sequence
Target Sequence 
>C. ELEGANS:173875_AT
accccgcaaaactttcactgtatgaatggtgctgcttgacattccattccagaattcaag
tataacccatcatcaagtgctcgtgttatttttcttgttttcattaacttttttttttgc
tttttttcaaaacataactgagaatttaatttcaaataaattatcagaaaattttggttt
ccattttatttaaaaactatcaatccacctccatgaattcactcgttttttcttttgcct
tcttgttccatcatcatccgtaggtaatttgtttctgttccatcatctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCCCGCAAAACTTTCACTGTATGA 97 87 553 Antisense
ATGGTGCTGCTTGACATTCCATTCC 393 51 578 Antisense
GCTGCTTGACATTCCATTCCAGAAT 459 295 583 Antisense
TTCCAGAATTCAAGTATAACCCATC 410 695 599 Antisense
ATAACCCATCATCAAGTGCTCGTGT 100 25 614 Antisense
AGTGCTCGTGTTATTTTTCTTGTTT 234 61 628 Antisense
AACTATCAATCCACCTCCATGAATT 130 139 747 Antisense
CACCTCCATGAATTCACTCGTTTTT 529 199 758 Antisense
ATGAATTCACTCGTTTTTTCTTTTG 15 45 765 Antisense
TGTTCCATCATCATCCGTAGGTAAT 409 561 796 Antisense
TAATTTGTTTCTGTTCCATCATCTC 465 635 817 Antisense
Sequence Source Affymetrix Proprietary Database