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[174601_s_at]

Description CEK001BXR_rc /REP_DB=TREMBL Accession /GB=D32653 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk1b10 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 47      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_total > 47      4grp_total > 13      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 102.4
(-0.3)
P 		86.9
(-1.7)
P 		72.9
(-3)
P 		138
(3)
P 		65
B 118.2
(0.3)
P 		66.6
(-2.3)
P 		52
(-3)
P 		172.4
(3)
P 		120
C 126.4
(1.2)
P 		71
(-3)
P 		93.9
(-1.3)
P 		149.9
(3)
P 		79
avr 115.7
(0.2) 		74.8
(-2.9) 		72.9
(-3) 		153.4
(3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 73.7
(-0.2)
P 		93.5
(3)
P 		82.3
(1.2)
A 		55.8
(-3)
P 		62.4
(-1.9)
A 		84.1
(1.5)
P 		38
B 84.8
(3)
P 		66.8
(0.4)
P 		56
(-1.1)
P 		52.7
(-1.6)
P 		43
(-3)
P 		59
(-0.7)
P 		42
C 92.1
(-0)
P 		53.4
(-2.7)
P 		73.1
(-1.3)
P 		48.9
(-3)
P 		52.4
(-2.8)
P 		135.3
(3)
P 		86
avr 83.5
(1.6) 		71.2
(-0.2) 		70.5
(-0.3) 		52.5
(-3) 		52.6
(-3) 		92.8
(3) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 37.3
(3)
P 		18.9
(-3)
P 		19.1
(-2.9)
P 		20.2
(-2.6)
P 		18
B 37.7
(3)
P 		16.5
(-2)
P 		12.1
(-3)
P 		36.7
(2.8)
P 		26
C 41.8
(3)
P 		20.4
(-3)
P 		32.7
(0.4)
P 		25.3
(-1.6)
P 		21
avr 38.9
(3) 		18.6
(-3) 		21.3
(-2.2) 		27.4
(-0.4) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 13.6
(-3)
P 		33.3
(3)
P 		17.9
(-1.7)
A 		14.2
(-2.8)
P 		18.8
(-1.4)
A 		20.5
(-0.9)
P 		20
B 29.5
(3)
P 		22.2
(0.2)
P 		13.6
(-3)
P 		14
(-2.8)
P 		17.5
(-1.5)
P 		22
(0.2)
P 		16
C 34.1
(1.1)
P 		16.3
(-1.9)
P 		18.6
(-1.5)
P 		9.8
(-3)
P 		17
(-1.8)
P 		45.3
(3)
P 		36
avr 25.7
(1.7) 		23.9
(1) 		16.7
(-1.6) 		12.7
(-3) 		17.8
(-1.2) 		29.3
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174601_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21969
Sequence Type Exemplar sequence
Representative Public ID CEK001BXR NCBI
Target Description CEK001BXR_rc /REP_DB=TREMBL Accession /GB=D32653 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk1b10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_071844(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071844 NCBI Caenorhabditis elegans Y61A9LA.10 (Y61A9LA.10) mRNA, complete cds. 11/11 None
SNAP00000010107 ENSEMBL cdna:SNAP chromosome:CEL140:V:4607026:4615622:-1 9/11 None
Y61A9LA.10 ENSEMBL cdna:known chromosome:CEL140:V:4606873:4615521:-1 gene:Y61A9LA.10 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000010116 1/11 Cross Hyb Matching Probes None
GENEFINDER00000010120 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4606882-4608532(-) 100.0 100.0
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
Sequence
Target Sequence 
>C. ELEGANS:174601_S_AT
agccgacgtatcaggcaagagaggagaaggagaaggattcacttgttgcacggcatacgg
cagtggtgttggaaccggaagaggcgaaacgagagagatttatggatatgttgagaacgt
tgaatgatgttgatttgaagaagcaggagaatattaaggaaggatataagaagagaaagg
ctgaagagatggccgaaagtgaggcaaaacgcgaaaagagcattaaatctcgaaagaagg
acatcagcagagtcttatcgaagaaggaacaagcaaaacttcgaaaggctcttggctcat
cggcgagcagctcctgaagctctggaatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCCGACGTATCAGGCAAGAGAGGA 555 81 13 Antisense
GGAGAAGGATTCACTTGTTGCACGG 430 519 41 Antisense
GATTCACTTGTTGCACGGCATACGG 244 429 48 Antisense
GTTGCACGGCATACGGCAGTGGTGT 559 439 57 Antisense
GGCATACGGCAGTGGTGTTGGAACC 482 537 64 Antisense
GGCAGTGGTGTTGGAACCGGAAGAG 479 519 71 Antisense
GGAACCGGAAGAGGCGAAACGAGAG 500 527 83 Antisense
GATTTATGGATATGTTGAGAACGTT 26 429 109 Antisense
TGGCCGAAAGTGAGGCAAAACGCGA 308 543 202 Antisense
CTCATCGGCGAGCAGCTCCTGAAGC 423 229 308 Antisense
AGCAGCTCCTGAAGCTCTGGAATCT 623 77 318 Antisense
Sequence Source Affymetrix Proprietary Database