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[173255_at]

Description 1864154 /REP_DB=GenBank Identifier /FEA=Transcript Cluster /DEF=ribosomal protein P1 homolog
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 20      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 19      6grp_total > 32      4grp_total > 25      6grp_highest_sub > 01_02_03      6grp_cgc > 71      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14215
1 2 3 4 range
A 26014.4
(-3)
P 		34438.9
(1.3)
P 		32532.8
(0.3)
P 		37763.6
(3)
P 		11749
B 25641.1
(-3)
P 		28614
(-0.5)
P 		31028.1
(1.5)
P 		32759.8
(3)
P 		7119
C 23965
(-3)
P 		26859.1
(-1.8)
P 		25677.2
(-2.3)
P 		38179.8
(3)
P 		14215
avr 25206.8
(-3) 		29970.7
(-0.4) 		29746
(-0.5) 		36234.4
(3) 		11028

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7115
1 2 3 4 5 6 range
A 23841.7
(3)
P 		22289.3
(1.3)
P 		22751.4
(1.8)
P 		22631.1
(1.7)
P 		18451.7
(-3)
P 		23824.7
(3)
P 		5390
B 20072.9
(1.2)
P 		21097.3
(3)
P 		20695.5
(2.3)
P 		19450.5
(0.2)
P 		17968.5
(-2.4)
P 		17628.7
(-3)
P 		3469
C 20770.7
(0.2)
P 		22746
(1.8)
P 		24142.2
(3)
P 		20300
(-0.2)
P 		20022.9
(-0.5)
P 		17026.8
(-3)
P 		7115
avr 21561.8
(1.4) 		22044.2
(2.2) 		22529.7
(3) 		20793.9
(0.2) 		18814.4
(-3) 		19493.4
(-1.9) 		3715
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3944
1 2 3 4 range
A 9471.8
(3)
P 		7475.8
(-0)
P 		8504.7
(1.5)
P 		5527.8
(-3)
P 		3944
B 8176.7
(3)
P 		7067
(-2.6)
P 		7189.9
(-2)
P 		6981.1
(-3)
P 		1196
C 7933.1
(0.6)
P 		7722.2
(0.1)
P 		8949.3
(3)
P 		6437.7
(-3)
P 		2512
avr 8527.2
(3) 		7421.7
(0) 		8214.6
(2.2) 		6315.5
(-3) 		2212

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3845
1 2 3 4 5 6 range
A 4395
(-3)
P 		7927.2
(3)
P 		4954.8
(-2)
P 		5739.8
(-0.7)
P 		5567.9
(-1)
P 		5800.6
(-0.6)
P 		3532
B 6984.4
(2.2)
P 		7022.4
(2.3)
P 		5025.5
(-3)
P 		5151.8
(-2.7)
P 		7300.4
(3)
P 		6573.7
(1.1)
P 		2275
C 7698.8
(3)
P 		6940.5
(1.7)
P 		6144.6
(0.4)
P 		4082.4
(-3)
P 		6479.1
(1)
P 		5699.9
(-0.3)
P 		3616
avr 6359.4
(0.6) 		7296.7
(3) 		5375
(-2) 		4991.3
(-3) 		6449.1
(0.8) 		6024.7
(-0.3) 		2305
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173255_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28078
Sequence Type Exemplar sequence
Representative Public ID 1864154 NCBI
Target Description 1864154 /REP_DB=GenBank Identifier /FEA=Transcript Cluster /DEF=ribosomal protein P1 homolog
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_170818(10), U89307(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170818 NCBI Caenorhabditis elegans Ribosomal Protein, Acidic family member (rpa-1) (rpa-1) mRNA, complete cds. 10/11 None
U89307 NCBI Caenorhabditis elegans ribosomal protein P1 homolog mRNA, SL2 trans-spliced, complete cds. 9/11 None
SNAP00000001189 ENSEMBL cdna:SNAP chromosome:CEL140:I:2069131:2069515:-1 9/11 None
GENEFINDER00000001212 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2069131:2069515:-1 9/11 None
Y37E3.7.1 ENSEMBL cdna:known chromosome:CEL140:I:2069084:2069589:-1 gene:Y37E3.7 10/11 None
Y37E3.7.2 ENSEMBL cdna:known chromosome:CEL140:I:2069084:2069577:-1 gene:Y37E3.7 10/11 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:2069089-2069579(-) 93.16 93.16
Public Domain and Genome References
Gene Title
Gene Symbol rpa-1
Ensembl Y37E3.7
Entrez Gene 171766 Entrez gene
SwissProt P91913 EMBL-EBI
WormBase CE26658 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261578_AT 60S acidic ribosomal protein P1 (RPP1A) at
CANINE:1583171_X_AT similar to ribosomal protein P1 isoform 2 cfa
CANINE:1605796_AT similar to ribosomal protein P1 isoform 2 cfa
CANINE_2:CFA.21459.1.S1_AT similar to ribosomal protein P1 isoform 2 cfa
CANINE_2:CFA.21459.1.S1_X_AT similar to ribosomal protein P1 isoform 2 cfa
DROSOPHILA_2:1623606_AT Ribosomal protein LP1 dm
DROSGENOME1:143247_AT Ribosomal protein LP1 dm
CHICKEN:GGA.3917.1.S1_S_AT ribosomal protein, large, P1 gga
CHICKEN:GGAAFFX.20789.1.A1_AT ribosomal protein, large, P1 gga
CHICKEN:GGA.3917.2.S1_A_AT Ribosomal protein, large, P1 gga
CHICKEN:GGAAFFX.20789.1.S1_AT Ribosomal protein, large, P1 gga
CHICKEN:GGA.3917.3.A1_AT Ribosomal protein, large, P1 gga
HG-U133_PLUS_2:200763_S_AT ribosomal protein, large, P1 hs
HG-FOCUS:200763_S_AT ribosomal protein, large, P1 hs
HG-U133A_2:200763_S_AT ribosomal protein, large, P1 hs
HG-U133A:200763_S_AT ribosomal protein, large, P1 hs
HUGENEFL:M17886_AT ribosomal protein, large, P1 hs
U133_X3P:G4506668_3P_A_AT ribosomal protein, large, P1 hs
HG-U95AV2:31956_F_AT ribosomal protein, large, P1 hs
HG-U95AV2:31957_R_AT ribosomal protein, large, P1 hs
HG-U133_PLUS_2:244191_AT Ribosomal protein, large, P1 hs
HG-U133B:244191_AT Ribosomal protein, large, P1 hs
U133_X3P:HS.282114.0.A1_3P_AT Ribosomal protein, large, P1 hs
MU11KSUBA:U29402_F_AT ribosomal protein, large, P1 mm
MG-U74AV2:100694_AT ribosomal protein, large, P1 mm
MG-U74AV2:161480_I_AT ribosomal protein, large, P1 mm
MOE430A:1416277_A_AT ribosomal protein, large, P1 mm
MOUSE430A_2:1416277_A_AT ribosomal protein, large, P1 mm
MOUSE430_2:1416277_A_AT ribosomal protein, large, P1 mm
MU19KSUBB:TC31904_F_AT Ribosomal protein, large, P1 (Rplp1), mRNA mm
MU19KSUBB:TC31904_R_AT Ribosomal protein, large, P1 (Rplp1), mRNA mm
RG-U34B:RC_AA945636_AT ribosomal protein, large, P1 rn
RAE230A:1371307_AT ribosomal protein, large, P1 rn
RAT230_2:1371307_AT ribosomal protein, large, P1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6414 translational elongation inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_740801 Ribosomal Protein, Acidic family member (rpa-1) [Caenorhabditis elegans] gb|AAK27864.1| Ribosomal protein, acidic protein 1 [Caenorhabditis elegans] sp|P91913|RLA1_CAEEL 60S acidic ribosomal protein P1 1.0E-32
blast AAB48625 ribosomal protein P1 homolog [Caenorhabditis elegans] 2.0E-32
blast AAB48625 ribosomal protein P1 homolog [Caenorhabditis elegans] 2.0E-31
blast NP_740801 Ribosomal Protein, Acidic family member (rpa-1) [Caenorhabditis elegans] gb|AAK27864.1| Ribosomal protein, acidic protein 1 [Caenorhabditis elegans] sp|P91913|RLA1_CAEEL 60S acidic ribosomal protein P1 2.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR001813 EMBL-EBI Ribosomal protein 60S 2.0E-36
Pfam IPR001813 EMBL-EBI Ribosomal protein 60S 6.6E-36
Sequence
Target Sequence 
>C. ELEGANS:173255_AT
aacccagttactcaagcgttctatcaaacgtttgttctctttggagctaaggcaaaccgc
gcaacttacgattgaagaatggcttcgaaccaagaactggcttgcgtctacgctgctctc
atccttcaagatgacgaggtcgccatcaccggcgagaagatcgctacccttctcaaggcc
gccaacgtcgagttcgagccatactggccaggactcttcgccaaggctctcgagggagtt
gatgtgaagaacctcatcacttctgtctcttccggagccggatctggac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCCAGTTACTCAAGCGTTCTATC 98 147 19 Antisense
GCAAACCGCGCAACTTACGATTGAA 226 319 70 Antisense
CAAGAACTGGCTTGCGTCTACGCTG 117 185 109 Antisense
CGCTGCTCTCATCCTTCAAGATGAC 42 255 129 Antisense
CAAGATGACGAGGTCGCCATCACCG 118 185 145 Antisense
ACCGGCGAGAAGATCGCTACCCTTC 416 85 166 Antisense
GCCAACGTCGAGTTCGAGCCATACT 601 277 199 Antisense
TCGAGCCATACTGGCCAGGACTCTT 154 601 212 Antisense
TCTTCGCCAAGGCTCTCGAGGGAGT 63 617 233 Antisense
TGTGAAGAACCTCATCACTTCTGTC 211 555 261 Antisense
GTCTCTTCCGGAGCCGGATCTGGAC 263 467 283 Antisense
Sequence Source GenBank