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[172176_at]

Description Y61A9LA.A /REP_DB=WormBase Gene ID /WP=CE25521 /CHR=5 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60833.1
Cluster 6grp_total > 01      4grp_total > 14      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 7
(-2.7)
A 		10.7
(-1)
A 		19.8
(3)
A 		6.3
(-3)
A 		14
B 25.8
(0.7)
A 		4.3
(-2.5)
A 		1.3
(-3)
A 		40.8
(3)
A 		40
C 19.9
(3)
A 		1.5
(-3)
A 		2.9
(-2.5)
A 		17.4
(2.2)
A 		18
avr 17.6
(1.5) 		5.5
(-3) 		8
(-2.1) 		21.5
(3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 3.5
(1.2)
A 		3.3
(0.9)
A 		3.1
(0.6)
A 		3.3
(0.9)
A 		0.9
(-3)
A 		4.6
(3)
A 		4
B 2.4
(-2.9)
A 		34.5
(3)
A 		1.6
(-3)
A 		2.4
(-2.9)
A 		8.5
(-1.7)
A 		4
(-2.6)
A 		33
C 12.7
(0.2)
A 		21.6
(3)
A 		3.6
(-2.6)
A 		2.4
(-3)
A 		11.1
(-0.3)
A 		5.2
(-2.1)
A 		19
avr 6.2
(-1.8) 		19.8
(3) 		2.8
(-3) 		2.7
(-3) 		6.8
(-1.6) 		4.6
(-2.3) 		17
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2.6
(-0.6)
A 		2.3
(-1)
A 		5.2
(3)
A 		0.9
(-3)
A 		4
B 8.2
(2.6)
A 		1.1
(-2.4)
A 		0.3
(-3)
A 		8.7
(3)
A 		8
C 6.6
(3)
A 		0.4
(-3)
A 		1
(-2.4)
A 		2.9
(-0.6)
A 		6
avr 5.8
(3) 		1.3
(-3) 		2.2
(-1.8) 		4.2
(0.9) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.6
(-1)
A 		1.2
(3)
A 		0.7
(-0.3)
A 		0.8
(0.3)
A 		0.3
(-3)
A 		1.1
(2.3)
A 		1
B 0.8
(-2.8)
A 		11.5
(3)
A 		0.4
(-3)
A 		0.6
(-2.9)
A 		3.5
(-1.3)
A 		1.5
(-2.4)
A 		11
C 4.7
(1.1)
A 		6.6
(3)
A 		0.9
(-2.6)
A 		0.5
(-3)
A 		3.6
(0)
A 		1.8
(-1.7)
A 		6
avr 2
(-1.6) 		6.4
(3) 		0.7
(-2.9) 		0.6
(-3) 		2.5
(-1) 		1.5
(-2.1) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 172176_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19545
Sequence Type Exemplar sequence
Representative Public ID Y61A9LA.A NCBI
Target Description Y61A9LA.A /REP_DB=WormBase Gene ID /WP=CE25521 /CHR=5 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60833.1
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_071844
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000010107 ENSEMBL cdna:SNAP chromosome:CEL140:V:4607026:4615622:-1 None
NM_071844 NCBI Caenorhabditis elegans Y61A9LA.10 (Y61A9LA.10) mRNA, complete cds. A 
GENEFINDER00000010121 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4609988:4615622:-1 None
Y61A9LA.10 ENSEMBL cdna:known chromosome:CEL140:V:4606873:4615521:-1 gene:Y61A9LA.10 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
chrV:4609761-4615622(-) 93.7 100.0
Public Domain and Genome References
Gene Title
Ensembl Y61A9LA.10
Entrez Gene 178851 Entrez gene
SwissProt Q9N306 EMBL-EBI
WormBase CE31121 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260824_AT expressed protein at
CANINE:1597694_S_AT similar to Ribosome biogenesis protein BMS1 homolog cfa
CANINE:1597693_AT similar to Ribosome biogenesis protein BMS1 homolog cfa
CANINE_2:CFA.10809.1.A1_AT similar to Ribosome biogenesis protein BMS1 homolog cfa
CANINE_2:CFAAFFX.11557.1.S1_S_AT similar to Ribosome biogenesis protein BMS1 homolog cfa
DROSOPHILA_2:1633466_AT dm
DROSGENOME1:154829_AT dm
CHICKEN:GGA.17060.1.S1_AT BMS1-like, ribosome assembly protein (yeast) gga
CHICKEN:GGA.9610.1.S1_AT BMS1-like, ribosome assembly protein (yeast) gga
CHICKEN:GGA.9610.1.S1_S_AT BMS1-like, ribosome assembly protein (yeast) gga
CHICKEN:GGAAFFX.25553.1.S1_S_AT BMS1-like, ribosome assembly protein (yeast) gga
HUGENEFL:D80009_AT BMS1-like, ribosome assembly protein (yeast) hs
HG-U133A:203082_AT BMS1-like, ribosome assembly protein (yeast) hs
HG-U133_PLUS_2:203082_AT BMS1-like, ribosome assembly protein (yeast) hs
HG-U133A_2:203082_AT BMS1-like, ribosome assembly protein (yeast) hs
U133_X3P:G7661979_3P_X_AT BMS1-like, ribosome assembly protein (yeast) hs
U133_X3P:G7661979_3P_AT BMS1-like, ribosome assembly protein (yeast) hs
U133_X3P:HS2.252930.1.S1_3P_S_AT BMS1-like, ribosome assembly protein (yeast) hs
HG-U95AV2:38709_AT BMS1-like, ribosome assembly protein (yeast) hs
HG-U95B:49693_AT BMS1-like, ribosome assembly protein (yeast) hs
HU35KSUBB:RC_AA044741_AT BMS1-like, ribosome assembly protein (yeast) hs
MOUSE430_2:1447679_S_AT BMS1-like, ribosome assembly protein (yeast) mm
MOE430B:1447679_S_AT BMS1-like, ribosome assembly protein (yeast) mm
MU11KSUBA:AA623849_S_AT BMS1-like, ribosome assembly protein (yeast) mm
MG-U74AV2:94363_AT BMS1-like, ribosome assembly protein (yeast) mm
MG-U74CV2:168335_AT BMS1-like, ribosome assembly protein (yeast) mm
MG-U74CV2:166246_F_AT BMS1-like, ribosome assembly protein (yeast) mm
MOE430A:1433636_AT BMS1-like, ribosome assembly protein (yeast) mm
MOUSE430A_2:1433636_AT BMS1-like, ribosome assembly protein (yeast) mm
MOUSE430_2:1433636_AT BMS1-like, ribosome assembly protein (yeast) mm
MU19KSUBB:TC28098_AT BMS1-like, ribosome assembly protein (yeast), mRNA (cDNA clone IMAGE:4503618) mm
MU19KSUBB:TC28098_G_AT BMS1-like, ribosome assembly protein (yeast), mRNA (cDNA clone IMAGE:4503618) mm
MU19KSUBC:TC39318_AT BMS1-like, ribosome assembly protein (yeast), mRNA (cDNA clone IMAGE:4503618) mm
RAE230A:1373768_AT BMS1-like, ribosome assembly protein (yeast) (predicted) rn
RAT230_2:1373768_AT BMS1-like, ribosome assembly protein (yeast) (predicted) rn
YEAST_2:1774313_AT Essential conserved nucleolar GTP-binding protein required for synthesis of 40S ribosomal subunits and for processing of the 35S pre-rRNA at sites A0, A1, and A2; interacts with Rcl1p, has similarity to Tsr1p Sc
Protein Similarities
Method ID Description E-Value
blast AAF60833 Hypothetical protein Y61A9LA.10 [Caenorhabditis elegans] ref|NP_504245.2| Y61A9LA.10 [Caenorhabditis elegans] 0.0
blast CAE64154 Hypothetical protein CBG08772 [Caenorhabditis briggsae] 0.0
blast XP_857393 PREDICTED: similar to Ribosome biogenesis protein BMS1 homolog isoform 6 [Canis familiaris] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007034 EMBL-EBI Protein of unknown function DUF663 2.2E-107
Pfam IPR007034 EMBL-EBI Protein of unknown function DUF663 2.2E-107
Pfam IPR007034 EMBL-EBI Protein of unknown function DUF663 4.7E-30
Sequence
Target Sequence 
>C. ELEGANS:172176_AT
gagatgatgatgaaaccggtgggaatgaaaagaaagaagaatctgaagcggataaatcac
ggaaacagaaacgacttgaagcgaagattaagctgaaacaacgattcaatgatgattatg
atgagacttgcaagttctataacaaagcaaaaaatgagatgacagagcaagcagacttga
atcgtcaagttttcgaaggaatggacgaagaagaacgggaaaaagtggagggattccgtt
ctggaagatatgttcgaattgagatttcaagtgttccatggaaaacggcaattttttttc
gatctttttcaacgaaaattgacatttttcgatttgttctagagaaaaacgacaattatt
tacgatttttcaatttggaaattctaattttttttcgagttttttcaaagataaaaggca
ggtacttttttccaattttttgttggagaaaatctaatttttccgatttaaaaaaaaaaa
atttcgatgtttctagaaatagcggcgattttttatgttttttttcggctaaaattgaac
attttctcggggttttccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATGATGATGAAACCGGTGGGAA 188 397 1739 Antisense
GAATCTGAAGCGGATAAATCACGGA 351 329 1777 Antisense
CACGGAAACAGAAACGACTTGAAGC 262 199 1796 Antisense
GAGACTTGCAAGTTCTATAACAAAG 519 391 1861 Antisense
GAGCAAGCAGACTTGAATCGTCAAG 630 389 1903 Antisense
AAGTGGAGGGATTCCGTTCTGGAAG 338 157 1961 Antisense
ATTGAGATTTCAAGTGTTCCATGGA 263 5 1996 Antisense
GTGTTCCATGGAAAACGGCAATTTT 425 477 2009 Antisense
CGACAATTATTTACGATTTTTCAAT 511 251 2088 Antisense
GAAATAGCGGCGATTTTTTATGTTT 432 363 2234 Antisense
TGAACATTTTCTCGGGGTTTTCCAG 314 573 2274 Antisense
Sequence Source Affymetrix Proprietary Database