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[173234_s_at]

Description C52750_rc /REP_DB=TREMBL Accession /GB=C52750 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk272d5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 38      4grp_highest_8_8 > 38      4grp_high_8_8 > 04      6grp_highest_nonorm > 80      6grp_total > 38      4grp_total > 05      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 590
1 2 3 4 range
A 396.5
(-0.7)
P 		177.4
(-3)
P 		241.7
(-2.3)
P 		756.7
(3)
P 		579
B 373.2
(-0.8)
P 		166.6
(-3)
P 		224.1
(-2.4)
P 		730.9
(3)
P 		564
C 376.8
(-0.3)
P 		187.2
(-3)
P 		234.4
(-2.3)
P 		610.5
(3)
P 		423
avr 382.2
(-0.6) 		177.1
(-3) 		233.4
(-2.4) 		699.4
(3) 		522

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 264.7
(3)
P 		190.8
(-1.8)
P 		172.3
(-3)
P 		188.9
(-1.9)
P 		179.3
(-2.5)
P 		237.2
(1.2)
P 		92
B 295.4
(3)
P 		248.4
(0.8)
P 		167
(-3)
P 		189
(-2)
P 		200.2
(-1.4)
P 		273.4
(2)
P 		128
C 295.7
(3)
P 		198.2
(-1.9)
P 		175.7
(-3)
P 		212
(-1.2)
P 		192.5
(-2.2)
P 		260.7
(1.3)
P 		120
avr 285.3
(3) 		212.5
(-0.8) 		171.7
(-3) 		196.6
(-1.7) 		190.7
(-2) 		257.1
(1.5) 		114
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 144.4
(3)
P 		38.5
(-3)
P 		63.2
(-1.6)
P 		110.8
(1.1)
P 		106
B 119
(1.1)
P 		41.2
(-3)
P 		51.9
(-2.4)
P 		155.8
(3)
P 		115
C 124.7
(3)
P 		53.8
(-3)
P 		81.7
(-0.6)
P 		102.9
(1.2)
P 		71
avr 129.4
(3) 		44.5
(-3) 		65.6
(-1.5) 		123.2
(2.6) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 48.8
(-0.8)
P 		67.9
(3)
P 		37.5
(-3)
P 		47.9
(-0.9)
P 		54.1
(0.3)
P 		57.7
(1)
P 		30
B 102.8
(3)
P 		82.7
(1.1)
P 		40.6
(-3)
P 		50.1
(-2.1)
P 		81.3
(0.9)
P 		102
(2.9)
P 		62
C 109.6
(3)
P 		60.5
(-1.4)
P 		44.7
(-2.8)
P 		42.6
(-3)
P 		62.3
(-1.2)
P 		87.3
(1)
P 		67
avr 87.1
(3) 		70.4
(0.8) 		40.9
(-3) 		46.9
(-2.2) 		65.9
(0.2) 		82.3
(2.4) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173234_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27661
Sequence Type Exemplar sequence
Representative Public ID C52750 NCBI
Target Description C52750_rc /REP_DB=TREMBL Accession /GB=C52750 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk272d5 : 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_060460(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060460 NCBI Caenorhabditis elegans Y52B11A.10 (Y52B11A.10) mRNA, complete cds. 11/11 A 
SNAP00000015594 ENSEMBL cdna:SNAP chromosome:CEL140:I:11038766:11060523:1 11/11 None
GENEFINDER00000015599 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11047187:11060523:1 11/11 None
Y52B11A.10 ENSEMBL cdna:known chromosome:CEL140:I:11047181:11060597:1 gene:Y52B11A.10 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:11059830-11060478(+) 89.04 89.04
Public Domain and Genome References
Gene Title
Ensembl Y52B11A.10
Entrez Gene 173006 Entrez gene
SwissProt Q9U255 EMBL-EBI
WormBase CE20298 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250066_AT MA3 domain-containing protein at
DROSOPHILA_2:1625269_AT dm
DROSGENOME1:148042_AT dm
CHICKEN:GGA.7382.1.S1_AT similar to CG9004-PA gga
HU35KSUBA:RC_AA022632_AT nucleolar protein with MIF4G domain 1 hs
HU35KSUBA:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HU35KSUBB:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HU35KSUBC:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HU35KSUBD:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HUGENEFL:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HC-G110:HUM_ALU_AT nucleolar protein with MIF4G domain 1 hs
HU35KSUBC:RC_H97788_AT nucleolar protein with MIF4G domain 1 hs
U133_X3P:HS.42443.0.A1_3P_AT nucleolar protein with MIF4G domain 1 hs
U133_X3P:HS.15825.0.A1_3P_AT nucleolar protein with MIF4G domain 1 hs
U133_X3P:229220_3P_X_AT nucleolar protein with MIF4G domain 1 hs
HG-U133_PLUS_2:227161_AT nucleolar protein with MIF4G domain 1 hs
HG-U133B:227161_AT nucleolar protein with MIF4G domain 1 hs
HG-U133_PLUS_2:229220_X_AT nucleolar protein with MIF4G domain 1 hs
HG-U133B:229220_X_AT nucleolar protein with MIF4G domain 1 hs
HG-U95B:47911_AT nucleolar protein with MIF4G domain 1 hs
HG-U95B:53540_AT nucleolar protein with MIF4G domain 1 hs
HG-U95E:72456_R_AT nucleolar protein with MIF4G domain 1 hs
HG-U95D:71632_AT Nucleolar protein with MIF4G domain 1 hs
MG-U74CV2:130592_AT B16 F10Y cells cDNA, RIKEN full-length enriched library, clone:G370137F12 product:hypothetical Initiation factor eIF-4 gamma, MA3/ARM repeat fold containing protein, full insert sequence mm
MU19KSUBA:TC25199_AT B16 F10Y cells cDNA, RIKEN full-length enriched library, clone:G370137F12 product:hypothetical Initiation factor eIF-4 gamma, MA3/ARM repeat fold containing protein, full insert sequence mm
YEAST_2:1770607_AT Essential nuclear protein with a possible role in the osmoregulatory glycerol response; interacts with phospholipase C (Plc1p); putative homolog of human NOM1 which is implicated in acute myeloid leukemia Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation 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 CAB63391 Hypothetical protein Y52B11A.10 [Caenorhabditis elegans] ref|NP_492861.1| Y52B11A.10 [Caenorhabditis elegans] 0.0
blast CAE71829 Hypothetical protein CBG18870 [Caenorhabditis briggsae] 0.0
blast CAB63390 Hypothetical protein Y52B11A.8 [Caenorhabditis elegans] ref|NP_492859.1| Y52B11A.8 [Caenorhabditis elegans] 2.0E-69
blast XP_685763 PREDICTED: similar to nucleolar protein with MIF4G domain 1 [Danio rerio] 9.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 2.3E-38
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 8.3E-35
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 1.6E-27
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 8.3E-35
Pfam IPR003890 EMBL-EBI Initiation factor eIF-4 gamma, middle 2.3E-38
Pfam IPR003891 EMBL-EBI Initiation factor eIF-4 gamma, MA3 8.3E-35
Sequence
Target Sequence 
>C. ELEGANS:173234_S_AT
tgaagtcatgagtattaccgtactcaagacagtcgaatgggcgacccgctcagctagact
caccacaattctcnnnnnnttgttcctcggacttgcaaaatcgccggaatcagtgctgaa
acgtgtnttcgagcccgtcattgatcagcnnnnncgcacgaaattcgaacttttgtcaga
gggaatgcgagtgttntggcacatgaatctcaatgacttcgccgcctaccnnnnnntcga
taaatggatcatggagagcggatatgacta

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
TGAAGTCATGAGTATTACCGTACTC 500 575 13 Antisense
GTATTACCGTACTCAAGACAGTCGA 306 449 24 Antisense
AAGACAGTCGAATGGGCGACCCGCT 468 153 38 Antisense
TGTTCCTCGGACTTGCAAAATCGCC 368 561 93 Antisense
GGACTTGCAAAATCGCCGGAATCAG 410 523 101 Antisense
AAATCGCCGGAATCAGTGCTGAAAC 460 117 110 Antisense
GAAATTCGAACTTTTGTCAGAGGGA 322 363 172 Antisense
GAACTTTTGTCAGAGGGAATGCGAG 174 349 179 Antisense
GGCACATGAATCTCAATGACTTCGC 658 533 210 Antisense
ACATGAATCTCAATGACTTCGCCGC 428 107 213 Antisense
GGATCATGGAGAGCGGATATGACTA 342 499 258 Antisense
Sequence Source Affymetrix Proprietary Database