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[173299_s_at]

Description CEK007GXR_rc /REP_DB=TREMBL Accession /GB=D28011 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk7g10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_highest_8_8 > 45      4grp_high_8_8 > 0      6grp_highest_nonorm > 83      6grp_total > 47      4grp_total > 15      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 501.8
(2.5)
P 		511.2
(3)
P 		396.5
(-3)
P 		486.9
(1.7)
P 		115
B 473.1
(1.8)
P 		347.7
(-3)
P 		384.1
(-1.6)
P 		503.8
(3)
P 		156
C 492
(2.1)
P 		334.5
(-3)
P 		521.2
(3)
P 		436.3
(0.3)
P 		187
avr 489
(3) 		397.8
(-3) 		433.9
(-0.6) 		475.7
(2.1) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 306
1 2 3 4 5 6 range
A 389.7
(-2.9)
P 		430
(3)
P 		421.2
(1.7)
P 		415.2
(0.8)
P 		389
(-3)
P 		413.2
(0.5)
P 		41
B 598.3
(2.6)
P 		505.7
(0.2)
P 		464.1
(-0.9)
P 		409
(-2.3)
P 		382.9
(-3)
P 		615.4
(3)
P 		233
C 490.4
(1.7)
P 		465.9
(1)
P 		388.1
(-1)
P 		309.3
(-3)
P 		427.2
(0)
P 		542.7
(3)
P 		233
avr 492.8
(1.7) 		467.2
(0.7) 		424.5
(-1.1) 		377.8
(-3) 		399.7
(-2.1) 		523.8
(3) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 182.7
(3)
P 		111
(-0.9)
P 		103.7
(-1.3)
P 		71.3
(-3)
P 		111
B 150.9
(3)
P 		85.9
(-3)
P 		89
(-2.7)
P 		107.4
(-1)
P 		65
C 162.9
(2)
P 		96.2
(-1.7)
P 		181.6
(3)
P 		73.6
(-3)
P 		108
avr 165.5
(3) 		97.7
(-2) 		124.8
(0) 		84.1
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 167
1 2 3 4 5 6 range
A 71.8
(-3)
P 		152.9
(3)
P 		91.7
(-1.5)
P 		105.3
(-0.5)
P 		117.4
(0.4)
P 		100.6
(-0.9)
P 		81
B 208.2
(1.9)
P 		168.3
(-0)
P 		112.7
(-2.8)
P 		108.3
(-3)
P 		155.6
(-0.7)
P 		229.5
(3)
P 		121
C 181.8
(3)
P 		142.2
(1)
P 		98.8
(-1.2)
P 		62.2
(-3)
P 		138.2
(0.8)
P 		181.7
(3)
P 		120
avr 153.9
(1.7) 		154.5
(1.8) 		101.1
(-2.3) 		91.9
(-3) 		137.1
(0.4) 		170.6
(3) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173299_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28023
Sequence Type Exemplar sequence
Representative Public ID CEK007GXR NCBI
Target Description CEK007GXR_rc /REP_DB=TREMBL Accession /GB=D28011 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk7g10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_063962(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063962 NCBI Caenorhabditis elegans LEThal family member (let-858) (let-858) mRNA, complete cds. 11/11 A 
SNAP00000001848 ENSEMBL cdna:SNAP chromosome:CEL140:II:11022286:11027711:1 11/11 None
GENEFINDER00000001873 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11026533:11027711:1 11/11 None
F33A8.1.1 ENSEMBL cdna:known chromosome:CEL140:II:11022281:11027818:1 gene:F33A8.1 11/11 None
F33A8.1.2 ENSEMBL cdna:known chromosome:CEL140:II:11022282:11027783:1 gene:F33A8.1 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:11027437-11027775(+) 68.3 68.3
Public Domain and Genome References
Gene Title
Gene Symbol let-858
Ensembl F33A8.1
Entrez Gene 174689 Entrez gene
SwissProt Q17336 EMBL-EBI
WormBase CE17753 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261885_AT MIF4G domain-containing protein / MA3 domain-containing protein at
CANINE:1602252_AT similar to CG12750-PA cfa
CANINE_2:CFA.8913.1.A1_AT similar to CG12750-PA cfa
CANINE_2:CFAAFFX.21846.1.S1_AT similar to CG12750-PA cfa
DROSOPHILA_2:1628866_AT dm
DROSGENOME1:141602_AT dm
CHICKEN:GGAAFFX.5692.1.S1_S_AT similar to KIAA1604 protein gga
CHICKEN:GGAAFFX.5692.3.S1_S_AT similar to KIAA1604 protein gga
CHICKEN:GGAAFFX.5692.4.S1_S_AT similar to KIAA1604 protein gga
HG-U95B:42003_AT KIAA1604 protein hs
HU35KSUBA:RC_AA236786_AT KIAA1604 protein hs
HU35KSUBB:RC_AA192304_AT KIAA1604 protein hs
U133_X3P:HS.209464.0.A1_3P_AT KIAA1604 protein hs
HG-U133_PLUS_2:226588_AT KIAA1604 protein hs
HG-U133B:226588_AT KIAA1604 protein hs
HG-U95B:43959_AT KIAA1604 protein hs
HG-U95E:86962_AT KIAA1604 protein hs
MG-U74AV2:102348_AT cDNA sequence BC003993 mm
MOUSE430A_2:1438278_A_AT cDNA sequence BC003993 mm
MOE430A:1438278_A_AT cDNA sequence BC003993 mm
MOUSE430_2:1438278_A_AT cDNA sequence BC003993 mm
MU11KSUBA:AA510516_F_AT cDNA sequence BC003993 mm
MU11KSUBA:AA169001_AT cDNA sequence BC003993 mm
MG-U74AV2:96222_AT cDNA sequence BC003993 mm
MG-U74CV2:130734_AT cDNA sequence BC003993 mm
MG-U74CV2:169990_R_AT cDNA sequence BC003993 mm
MG-U74CV2:169011_I_AT cDNA sequence BC003993 mm
MOE430A:1424607_A_AT cDNA sequence BC003993 mm
MOUSE430A_2:1424607_A_AT cDNA sequence BC003993 mm
MOUSE430_2:1424607_A_AT cDNA sequence BC003993 mm
MOE430A:1424609_A_AT cDNA sequence BC003993 mm
MOUSE430A_2:1424609_A_AT cDNA sequence BC003993 mm
MOUSE430_2:1424609_A_AT cDNA sequence BC003993 mm
RAE230B:1392548_AT similar to mKIAA1604 protein rn
RAT230_2:1392548_AT similar to mKIAA1604 protein rn
YEAST_2:1777655_AT Essential protein, component of a complex containing Cef1p, has similarity to S. pombe Cwf22p; putative spliceosomal component, based on computational analysis of large-scale protein-protein interaction data Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from direct assay QuickGO AmiGO
43073 germ cell nucleus inferred from direct assay QuickGO AmiGO
790 nuclear chromatin inferred from direct assay QuickGO AmiGO
5654 nucleoplasm inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04256 Hypothetical protein F33A8.1 [Caenorhabditis elegans] ref|NP_496363.1| LEThal family member (let-858) [Caenorhabditis elegans] gb|AAB51351.1| Nucampholin [Caenorhabditis elegans] 0.0
blast CAE59584 Hypothetical protein CBG02984 [Caenorhabditis briggsae] 0.0
blast AAF53667 CG12750-PA [Drosophila melanogaster] ref|NP_609877.2| CG12750-PA [Drosophila melanogaster] 1.0E-154
Protein Domains
Database ID Description E-Value
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 6.2E-53
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 2.2E-38
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 3.8E-20
Sequence
Target Sequence 
>C. ELEGANS:173299_S_AT
tcaagactcggatgatgaggatcggaaaggtcgtgaacctccggaagattcaggggaaag
acgtcccggagatcgggatcgacgtgatcgaaacaaggatcaggaggatcaccgtgaaga
tcgccgtgaccgaagcaaggatcgggaggatcgtcgtgatcgcagtaaggatcgagacga
tcgtcgngaagatcnccgtgaccgaagcaaggatcgtgaggannnnnnnnnnnnnnnnnn
nnangactntgangangatcgtaaaactcgtcgggatagaagtgaagagcgaggaggacg
tcgtcgtgaagtggaatcggatgatcg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAAGACTCGGATGATGAGGATCGG 609 631 26 Antisense
GATGAGGATCGGAAAGGTCGTGAAC 173 409 39 Antisense
CGGAGATCGGGATCGACGTGATCGA 195 241 92 Antisense
GGATCAGGAGGATCACCGTGAAGAT 684 511 122 Antisense
GATCACCGTGAAGATCGCCGTGACC 232 421 132 Antisense
CGTGAAGATCGCCGTGACCGAAGCA 628 243 138 Antisense
ATCGCCGTGACCGAAGCAAGGATCG 217 37 145 Antisense
GATCGTAAAACTCGTCGGGATAGAA 670 411 282 Antisense
GAAGAGCGAGGAGGACGTCGTCGTG 466 339 309 Antisense
GCGAGGAGGACGTCGTCGTGAAGTG 127 289 314 Antisense
GTCGTGAAGTGGAATCGGATGATCG 408 473 328 Antisense
Sequence Source Affymetrix Proprietary Database