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[184745_at]

Description C43E11.9 /REP_DB=WormBase Gene ID /WP=CE08687 /TR=P91154 /GB=AAB37628.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 76      4grp_highest_8_8 > 09      4grp_high_8_8 > 61      6grp_highest_nonorm > 84      6grp_total > 66      4grp_total > 58      6grp_highest_sub > In      6grp_high1_sub > Da      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1307
1 2 3 4 range
A 1120.1
(0.1)
P 		1603.9
(2.8)
P 		1631.6
(3)
P 		590
(-3)
P 		1042
B 1231.6
(0)
P 		1513.7
(1.3)
P 		1881.8
(3)
P 		575.1
(-3)
P 		1307
C 1156.7
(-0.7)
P 		1615.4
(3)
P 		1541.5
(2.4)
P 		881.4
(-3)
P 		734
avr 1169.5
(-0.1) 		1577.7
(2.4) 		1685
(3) 		682.2
(-3) 		1003

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 509
1 2 3 4 5 6 range
A 523.8
(-3)
P 		621.4
(-1.4)
P 		640.2
(-1.1)
P 		596.3
(-1.8)
P 		543.6
(-2.7)
P 		887.4
(3)
P 		364
B 465.5
(-2.7)
P 		562.9
(-0.9)
P 		707
(1.8)
P 		450.2
(-3)
P 		562.4
(-0.9)
P 		769.5
(3)
P 		319
C 465.7
(-3)
P 		845.8
(1.6)
P 		509.9
(-2.5)
P 		576.3
(-1.7)
P 		597
(-1.4)
P 		958.7
(3)
P 		493
avr 485
(-3) 		676.7
(-0) 		619
(-0.9) 		540.9
(-2.1) 		567.7
(-1.7) 		871.9
(3) 		387
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 451
1 2 3 4 range
A 407.8
(2.7)
P 		348.2
(1.6)
P 		426.5
(3)
P 		86.4
(-3)
P 		340
B 392.7
(2.2)
P 		373.8
(1.8)
P 		436.1
(3)
P 		122.5
(-3)
P 		314
C 382.9
(0.6)
P 		464.4
(1.9)
P 		537.3
(3)
P 		148.6
(-3)
P 		389
avr 394.5
(1.8) 		395.5
(1.8) 		466.6
(3) 		119.2
(-3) 		347

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 224
1 2 3 4 5 6 range
A 96.6
(-3)
P 		221
(3)
P 		139.4
(-0.9)
P 		151.2
(-0.4)
P 		164
(0.3)
P 		216.1
(2.8)
P 		124
B 162
(-1.5)
P 		187.4
(-0.6)
P 		171.7
(-1.1)
P 		119.3
(-3)
P 		228.5
(0.9)
P 		287
(3)
P 		168
C 172.6
(-1.3)
P 		258.1
(1.2)
P 		129.8
(-2.6)
P 		115.9
(-3)
P 		193.2
(-0.7)
P 		320.9
(3)
P 		205
avr 143.7
(-2.4) 		222.2
(0.8) 		147
(-2.3) 		128.8
(-3) 		195.2
(-0.3) 		274.7
(3) 		146
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184745_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.549
Sequence Type Exemplar sequence
Representative Public ID C43E11.9 NCBI
Target Description C43E11.9 /REP_DB=WormBase Gene ID /WP=CE08687 /TR=P91154 /GB=AAB37628.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
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_058941(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058941 NCBI Caenorhabditis elegans C43E11.9 (C43E11.9) mRNA, complete cds. 11/11 None
SNAP00000031016 ENSEMBL cdna:SNAP chromosome:CEL140:I:4254960:4267968:-1 11/11 None
GENEFINDER00000031026 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4267331:4267968:-1 11/11 None
C43E11.9.1 ENSEMBL cdna:known chromosome:CEL140:I:4267206:4267970:-1 gene:C43E11.9 11/11 None
C43E11.9.2 ENSEMBL cdna:known chromosome:CEL140:I:4267272:4267968:-1 gene:C43E11.9 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
chrI:4267330-4267968(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C43E11.9
Entrez Gene 172028 Entrez gene
SwissProt P91154 EMBL-EBI
WormBase CE08687 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:14486_AT 60S ribosome subunit biogenesis protein, putative at
ATH1-121501:245512_AT 60S ribosome subunit biogenesis protein, putative at
CANINE:1604802_S_AT similar to 60S ribosome subunit biogenesis protein NIP7 homolog (KD93) cfa
CANINE_2:CFA.466.2.S1_A_AT similar to 60S ribosome subunit biogenesis protein NIP7 homolog (KD93) cfa
CANINE_2:CFAAFFX.31050.1.S1_S_AT similar to 60S ribosome subunit biogenesis protein NIP7 homolog (KD93) cfa
CANINE_2:CFAAFFX.31051.1.S1_S_AT similar to 60S ribosome subunit biogenesis protein NIP7 homolog (KD93) cfa
DROSOPHILA_2:1633247_AT dm
DROSGENOME1:142493_AT dm
CHICKEN:GGA.8338.1.S1_AT similar to Saccharomyces cerevisiae Nip7p homolog gga
HG-U133_PLUS_2:219031_S_AT comparative gene identification transcript 37 hs
HG-U133A:219031_S_AT comparative gene identification transcript 37 hs
HG-U133A_2:219031_S_AT comparative gene identification transcript 37 hs
HU35KSUBA:HUM_ALU_AT comparative gene identification transcript 37 hs
HU35KSUBB:HUM_ALU_AT comparative gene identification transcript 37 hs
HU35KSUBC:HUM_ALU_AT comparative gene identification transcript 37 hs
HU35KSUBD:HUM_ALU_AT comparative gene identification transcript 37 hs
HUGENEFL:HUM_ALU_AT comparative gene identification transcript 37 hs
HC-G110:HUM_ALU_AT comparative gene identification transcript 37 hs
HU35KSUBA:AA249460_AT comparative gene identification transcript 37 hs
HU35KSUBC:RC_AA045261_AT comparative gene identification transcript 37 hs
HG-U133B:223397_S_AT comparative gene identification transcript 37 hs
HG-U133_PLUS_2:223397_S_AT comparative gene identification transcript 37 hs
U133_X3P:G7705436_3P_A_AT comparative gene identification transcript 37 hs
U133_X3P:G6841579_3P_A_AT comparative gene identification transcript 37 hs
HG-U95C:65502_R_AT comparative gene identification transcript 37 hs
HG-U95E:88358_R_AT comparative gene identification transcript 37 hs
HG-U95C:59223_AT Comparative gene identification transcript 37 hs
MU11KSUBA:AA000148_S_AT RIKEN cDNA 1110017C15 gene mm
MG-U74AV2:97305_AT RIKEN cDNA 1110017C15 gene mm
MOE430A:1448480_AT RIKEN cDNA 1110017C15 gene mm
MOUSE430A_2:1448480_AT RIKEN cDNA 1110017C15 gene mm
MOUSE430_2:1448480_AT RIKEN cDNA 1110017C15 gene mm
MU19KSUBB:TC30919_AT RIKEN cDNA 1110017C15 gene (1110017C15Rik), mRNA mm
MU19KSUBB:TC30919_G_AT RIKEN cDNA 1110017C15 gene (1110017C15Rik), mRNA mm
MU19KSUBB:TC30920_AT RIKEN cDNA 1110017C15 gene (1110017C15Rik), mRNA mm
RG-U34C:RC_AI071990_AT Saccharomyces cerevisiae Nip7p homolog rn
RAE230A:1387950_AT Saccharomyces cerevisiae Nip7p homolog rn
RAT230_2:1387950_AT Saccharomyces cerevisiae Nip7p homolog rn
YEAST_2:1775150_AT Nucleolar protein required for 60S ribosome subunit biogenesis, constituent of 66S pre-ribosomal particles; physically interacts with Nop8p and the exosome subunit Rrp43p Sc
Gene Ontology
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 AAB37628 Hypothetical protein C43E11.9 [Caenorhabditis elegans] ref|NP_491342.1| C43E11.9 [Caenorhabditis elegans] 1.0E-101
blast AAB37628 Hypothetical protein C43E11.9 [Caenorhabditis elegans] ref|NP_491342.1| C43E11.9 [Caenorhabditis elegans] 1.0E-99
blast CAE66817 Hypothetical protein CBG12182 [Caenorhabditis briggsae] 3.0E-99
blast CAE66817 Hypothetical protein CBG12182 [Caenorhabditis briggsae] 4.0E-98
Sequence
Target Sequence 
>C. ELEGANS:184745_AT
ttggcctcgttcatcggagacaatgtctcgatgctcatcgacagaaatgatggagattat
tgcttcagaaatcacaaggaacgtgtctattactgttcggaaaatctgatgcgtcaagcc
gcctgcattgcccgtgagccacttctctcttttggaacttgcttgggaaagttcaccaaa
agcaaaaagttccatctccaaatcaccgctctcgactatttggcgccgtatgccaagttc
aaggtgtggctgaagccgaacgccgagcagcaattcctttacggaaacaacattctcaag
tctggaatcgcaagaatgaccgacggaactccaactcatgctggaatcgtcgtatactcg
atgaccgatgttccattgggattcggagtgtcagcgaaaggaacatcagacagtaagcgt
gccgatccaactg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGCCTCGTTCATCGGAGACAATG 292 705 58 Antisense
GAGACAATGTCTCGATGCTCATCGA 369 393 74 Antisense
AAAATCTGATGCGTCAAGCCGCCTG 295 133 158 Antisense
CCACTTCTCTCTTTTGGAACTTGCT 238 275 196 Antisense
CAAATCACCGCTCTCGACTATTTGG 156 193 256 Antisense
AGGTGTGGCTGAAGCCGAACGCCGA 447 57 299 Antisense
ACGCCGAGCAGCAATTCCTTTACGG 463 91 317 Antisense
GAATGACCGACGGAACTCCAACTCA 215 331 371 Antisense
CAACTCATGCTGGAATCGTCGTATA 548 187 389 Antisense
ACTCGATGACCGATGTTCCATTGGG 211 99 413 Antisense
GACAGTAAGCGTGCCGATCCAACTG 431 367 466 Antisense
Sequence Source Affymetrix Proprietary Database