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[173220_s_at] EUKARYOTIC TRANSLATION INITIATION FACTOR 6 (EIF-6)

Description AV183143_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV183143 /DEF=Caenorhabditis elegans cDNA clone:yk647b11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 39      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 85      6grp_total > 39      4grp_total > 52      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 833
1 2 3 4 range
A 1517.4
(0.5)
P 		1789.2
(3)
P 		1711.2
(2.3)
P 		1138.9
(-3)
P 		650
B 1721.7
(3)
P 		1506.7
(1.1)
P 		1390.2
(0.1)
P 		1040.3
(-3)
P 		681
C 1497.1
(3)
P 		1438.6
(2.4)
P 		1366.5
(1.6)
P 		956.6
(-3)
P 		541
avr 1578.7
(3) 		1578.2
(3) 		1489.3
(2) 		1045.3
(-3) 		533

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 453
1 2 3 4 5 6 range
A 867.5
(1)
P 		880.3
(1.2)
P 		595.4
(-3)
P 		642.3
(-2.3)
P 		719.5
(-1.2)
P 		1001.3
(3)
P 		406
B 830.3
(2.3)
P 		617.4
(-1.8)
P 		623.8
(-1.7)
P 		554.8
(-3)
P 		857.9
(2.8)
P 		869.1
(3)
P 		314
C 1002.3
(3)
P 		593.9
(-2.4)
P 		644.4
(-1.7)
P 		549.3
(-3)
P 		853.9
(1)
P 		609.6
(-2.2)
P 		453
avr 900
(3) 		697.2
(-0.8) 		621.2
(-2.3) 		582.1
(-3) 		810.4
(1.3) 		826.7
(1.6) 		318
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 391
1 2 3 4 range
A 552.5
(3)
P 		388.4
(0.4)
P 		447.3
(1.4)
P 		166.7
(-3)
P 		386
B 549
(3)
P 		372.1
(-0.2)
P 		322.1
(-1.2)
P 		221.7
(-3)
P 		327
C 495.6
(3)
P 		413.6
(1.5)
P 		476.3
(2.7)
P 		161.3
(-3)
P 		334
avr 532.4
(3) 		391.4
(0.6) 		415.2
(1) 		183.2
(-3) 		349

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 261
1 2 3 4 5 6 range
A 159.9
(-2)
P 		313.1
(3)
P 		129.7
(-3)
P 		162.9
(-1.9)
P 		217.1
(-0.1)
P 		243.8
(0.7)
P 		183
B 288.9
(1.2)
P 		205.5
(-1.3)
P 		151.5
(-2.9)
P 		147
(-3)
P 		348.5
(3)
P 		324.1
(2.3)
P 		202
C 371.5
(3)
P 		181.2
(-1.4)
P 		164
(-1.8)
P 		110.5
(-3)
P 		276.3
(0.8)
P 		204.1
(-0.8)
P 		261
avr 273.4
(2.7) 		233.3
(1) 		148.4
(-2.6) 		140.1
(-3) 		280.6
(3) 		257.3
(2) 		141
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173220_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26842
Sequence Type Exemplar sequence
Representative Public ID AV183143 NCBI
Target Description AV183143_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV183143 /DEF=Caenorhabditis elegans cDNA clone:yk647b11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_060871(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060871 NCBI Caenorhabditis elegans Eukaryotic Initiation Factor family member (eif-6) (eif-6) mRNA, complete cds. 11/11 A 
SNAP00000041231 ENSEMBL cdna:SNAP chromosome:CEL140:I:12977080:12978142:1 11/11 None
GENEFINDER00000041245 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12977080:12978142:1 11/11 None
C47B2.5.1 ENSEMBL cdna:known chromosome:CEL140:I:12977066:12978357:1 gene:C47B2.5 11/11 A 
C47B2.5.2 ENSEMBL cdna:known chromosome:CEL140:I:12977068:12978635:1 gene:C47B2.5 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
chrI:12977926-12978566(+) 85.0 85.0
Public Domain and Genome References
Gene Title EUKARYOTIC TRANSLATION INITIATION FACTOR 6 (EIF-6)
Gene Symbol eif-6
Ensembl C47B2.5
Entrez Gene 173169 Entrez gene
SwissProt O62106 EMBL-EBI
WormBase CE17565 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251776_AT eukaryotic translation initiation factor 6, putative / eIF-6, putative at
CANINE:1603880_AT similar to Eukaryotic translation initiation factor 6 (eIF-6) (B4 integrin interactor) (CAB) (p27(BBP)) (B(2)GCN homolog) cfa
CANINE:1601914_AT similar to Eukaryotic translation initiation factor 6 (eIF-6) (B4 integrin interactor) (CAB) (p27(BBP)) (B(2)GCN homolog) cfa
CANINE:1583155_AT similar to Eukaryotic translation initiation factor 6 (eIF-6) (B4 integrin interactor) (CAB) (p27(BBP)) (B(2)GCN homolog) cfa
CANINE_2:CFA.1140.1.A1_AT similar to Eukaryotic translation initiation factor 6 (eIF-6) (B4 integrin interactor) (CAB) (p27(BBP)) (B(2)GCN homolog) cfa
CANINE_2:CFAAFFX.12810.1.S1_S_AT similar to Eukaryotic translation initiation factor 6 (eIF-6) (B4 integrin interactor) (CAB) (p27(BBP)) (B(2)GCN homolog) cfa
DROSOPHILA_2:1633284_AT dm
DROSGENOME1:142234_AT dm
CHICKEN:GGA.15766.1.S1_AT integrin beta 4 binding protein gga
CHICKEN:GGAAFFX.11945.1.S1_S_AT integrin beta 4 binding protein gga
HG-U133_PLUS_2:210213_S_AT integrin beta 4 binding protein hs
HG-U133A:210213_S_AT integrin beta 4 binding protein hs
HG-FOCUS:210213_S_AT integrin beta 4 binding protein hs
HG-U133A_2:210213_S_AT integrin beta 4 binding protein hs
HU35KSUBA:RC_AA428243_AT integrin beta 4 binding protein hs
U133_X3P:G2809382_3P_A_AT integrin beta 4 binding protein hs
HG-U95AV2:35262_AT integrin beta 4 binding protein hs
MU11KSUBA:AA122622_S_AT integrin beta 4 binding protein mm
MG-U74AV2:94826_AT integrin beta 4 binding protein mm
MG-U74CV2:137639_AT integrin beta 4 binding protein mm
MG-U74BV2:165295_AT integrin beta 4 binding protein mm
MOE430A:1427578_A_AT integrin beta 4 binding protein mm
MOUSE430A_2:1427578_A_AT integrin beta 4 binding protein mm
MOUSE430_2:1427578_A_AT integrin beta 4 binding protein mm
MOE430B:1431582_AT integrin beta 4 binding protein mm
MOUSE430_2:1431582_AT integrin beta 4 binding protein mm
MU19KSUBA:TC15056_AT Integrin beta 4 binding protein, mRNA (cDNA clone MGC:37280 IMAGE:4973875) mm
MU19KSUBA:TC15056_G_AT Integrin beta 4 binding protein, mRNA (cDNA clone MGC:37280 IMAGE:4973875) mm
RG-U34C:RC_AI104279_AT integrin beta 4 binding protein (predicted) rn
RG-U34C:RC_AI236294_AT integrin beta 4 binding protein (predicted) rn
RAE230A:1388507_AT integrin beta 4 binding protein (predicted) rn
RAT230_2:1388507_AT integrin beta 4 binding protein (predicted) rn
RG-U34B:RC_AA998690_F_AT Integrin beta 4 binding protein (predicted) rn
YEAST_2:1777948_AT Constituent of 66S pre-ribosomal particles, has similarity to human translation initiation factor 6 (eIF6); may be involved in the biogenesis and or stability of 60S ribosomal subunits 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 CAB16860 Hypothetical protein C47B2.5 [Caenorhabditis elegans] ref|NP_493272.1| Eukaryotic Initiation Factor family member (eif-6) [Caenorhabditis elegans] sp|O62106|IF6_CAEEL Eukaryotic translation initiation factor 6 (eIF-6) 1.0E-134
blast CAE63470 Hypothetical protein CBG07937 [Caenorhabditis briggsae] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR002769 EMBL-EBI Translation initiation factor IF6 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173220_S_AT
gtcaacgattgggtcgcattttgtggactcgactccacttctaccgaactgtccgtcgtc
gaatcgatcttcaagctcggcgagcaaggagctccgacaagcatcagcaatcagctcaga
gatactctgattgagagcatgctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCAACGATTGGGTCGCATTTTGTG 6 465 13 Antisense
GATTGGGTCGCATTTTGTGGACTCG 519 435 19 Antisense
GGTCGCATTTTGTGGACTCGACTCC 6 503 24 Antisense
TTTTGTGGACTCGACTCCACTTCTA 705 677 31 Antisense
AACTGTCCGTCGTCGAATCGATCTT 181 143 59 Antisense
CGTCGAATCGATCTTCAAGCTCGGC 625 245 69 Antisense
GGCGAGCAAGGAGCTCCGACAAGCA 575 539 91 Antisense
GCAAGGAGCTCCGACAAGCATCAGC 311 321 96 Antisense
GACAAGCATCAGCAATCAGCTCAGA 459 365 108 Antisense
CAGCAATCAGCTCAGAGATACTCTG 229 205 117 Antisense
GATACTCTGATTGAGAGCATGCTCT 671 423 133 Antisense
Sequence Source Affymetrix Proprietary Database