[Home] | [Total List]

[193802_at] ribosomal protein/ubiquitin-like protein

Description C26F1.4 /REP_DB=WormBase Gene ID /WP=CE06878 /GEN=rps-30 /TR=Q18231 /GB=AAB37076.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ribosomal protein-ubiquitin-like protein
Cluster 6grp_highest_10_10 > 53      6grp_high1_10_10 > 34      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 29      6grp_total > 01      4grp_total > 08      6grp_highest_sub > 02      6grp_cgc > 53      6grp_high1_sub > 02      6grp_cgc_sub > 02      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11205
1 2 3 4 range
A 16663
(-3)
P 		16796
(-2.9)
P 		19310
(-1.1)
P 		24925
(3)
P 		8262
B 16346.2
(-3)
P 		18003.8
(0.1)
P 		19294.1
(2.5)
P 		19580.5
(3)
P 		3234
C 15484.1
(-2)
P 		13719.9
(-3)
P 		15518.3
(-2)
P 		24265.4
(3)
P 		10546
avr 16164.4
(-3) 		16173.2
(-3) 		18040.8
(-1.3) 		22923.6
(3) 		6759

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4521
1 2 3 4 5 6 range
A 14240.9
(3)
P 		12838.6
(0.2)
P 		11350.7
(-2.7)
P 		11430.4
(-2.6)
P 		12378.3
(-0.7)
P 		11208.8
(-3)
P 		3032
B 10144
(-3)
P 		14665
(3)
P 		10349.6
(-2.7)
P 		13315.4
(1.2)
P 		12179.2
(-0.3)
P 		11235.3
(-1.6)
P 		4521
C 11688.5
(-1.2)
P 		14371
(3)
P 		11976.9
(-0.7)
P 		10929.5
(-2.4)
P 		10528.7
(-3)
P 		12659.7
(0.3)
P 		3842
avr 12024.5
(-1.2) 		13958.2
(3) 		11225.7
(-3) 		11891.8
(-1.5) 		11695.4
(-2) 		11701.3
(-2) 		2733
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2421
1 2 3 4 range
A 6067
(3)
P 		3646
(-3)
P 		5048
(0.5)
P 		3648.5
(-3)
P 		2421
B 5212.7
(3)
P 		4446.5
(-1.4)
P 		4470.9
(-1.3)
P 		4172.6
(-3)
P 		1040
C 5125.7
(1.8)
P 		3944.6
(-3)
P 		5408.6
(3)
P 		4091.5
(-2.4)
P 		1464
avr 5468.5
(3) 		4012.4
(-2.8) 		4975.8
(1) 		3970.9
(-3) 		1498

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2750
1 2 3 4 5 6 range
A 2625.2
(-2.6)
P 		4566
(3)
P 		2471.9
(-3)
P 		2899
(-1.8)
P 		3735.2
(0.6)
P 		2729
(-2.3)
P 		2094
B 3529.6
(-0.5)
P 		4881.4
(2.8)
P 		2513.2
(-3)
P 		3526.8
(-0.5)
P 		4948.2
(3)
P 		4189.6
(1.1)
P 		2435
C 4332.4
(2.9)
P 		4385
(3)
P 		3048.3
(-0.7)
P 		2197.9
(-3)
P 		3406.9
(0.3)
P 		4237.9
(2.6)
P 		2187
avr 3495.7
(-0.5) 		4610.8
(3) 		2677.8
(-3) 		2874.6
(-2.4) 		4030.1
(1.2) 		3718.8
(0.2) 		1933
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193802_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12482
Sequence Type Exemplar sequence
Representative Public ID C26F1.4 NCBI
Target Description C26F1.4 /REP_DB=WormBase Gene ID /WP=CE06878 /GEN=rps-30 /TR=Q18231 /GB=AAB37076.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ribosomal protein-ubiquitin-like protein
Cluster Evidence This cluster is supported by a 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_072606(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072606 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-30) (rps-30) mRNA, complete cds. 11/11 A 
SNAP00000018570 ENSEMBL cdna:SNAP chromosome:CEL140:V:7779171:7779735:1 11/11 None
GENEFINDER00000018581 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7779171:7779735:1 11/11 None
C26F1.4.1 ENSEMBL cdna:known chromosome:CEL140:V:7779161:7779828:1 gene:C26F1.4 11/11 A 
C26F1.4.2 ENSEMBL cdna:known chromosome:CEL140:V:7779168:7779808:1 gene:C26F1.4 11/11 A 
C26F1.4.3 ENSEMBL cdna:known chromosome:CEL140:V:7779170:7779823:1 gene:C26F1.4 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
chrV:7779171-7779736(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein/ubiquitin-like protein
Gene Symbol rps-30
Ensembl C26F1.4
Entrez Gene 179154 Entrez gene
SwissProt Q18231 EMBL-EBI
WormBase CE06878 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597536_S_AT similar to Finkel-Biskis-Reilly murine sarcoma virusubiquitously expressed cfa
CANINE:1583349_S_AT similar to Finkel-Biskis-Reilly murine sarcoma virusubiquitously expressed cfa
CANINE_2:CFAAFFX.28280.1.S1_S_AT similar to Finkel-Biskis-Reilly murine sarcoma virusubiquitously expressed cfa
DROSOPHILA_2:1625943_AT Ribosomal protein S30 dm
DROSOPHILA_2:1623997_S_AT Ribosomal protein S30 dm
DROSGENOME1:150281_AT Ribosomal protein S30 dm
PLASMODIUM_ANOPHELES:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-U133_PLUS_2:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-FOCUS:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-U133A:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-U133B:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-U133A_2:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
U133_X3P:200019_S_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HG-U95AV2:31955_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
U133_X3P:G4503658_3P_A_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
HU35KSUBD:RC_D11747_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 hs
MU11KSUBA:L33715_F_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MU11KSUBB:MSA.1734.0_F_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MOE430A:1417452_A_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MOUSE430A_2:1417452_A_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MOUSE430_2:1417452_A_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MG-U74AV2:100141_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) mm
MG-U74AV2:99422_AT Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) (Fau), mRNA mm
RG-U34A:X62671CDS#1_S_AT similar to Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) rn
RG-U34C:RC_AI176302_G_AT similar to Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) rn
RAE230A:1371316_AT similar to Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) rn
RAT230_2:1371316_AT similar to Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis 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 AAB37076 Ribosomal protein, small subunit protein 30 [Caenorhabditis elegans] ref|NP_505007.1| Ribosomal Protein, Small subunit family member (rps-30) [Caenorhabditis elegans] 1.0E-59
blast CAE73188 Hypothetical protein CBG20587 [Caenorhabditis briggsae] 4.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR000626 EMBL-EBI Ubiquitin 1.6E-10
Pfam IPR006846 EMBL-EBI Ribosomal protein S30 4.7E-34
Sequence
Target Sequence 
>C. ELEGANS:193802_AT
tcgataacactacgcacacgctcgacgtggatgcctccaccaccctctccgctattaagg
gagtgatcggagccggagaagaattctcgatctcctacggatccaaggttcttagcgagg
agctcactcttggagaatgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGATAACACTACGCACACGCTCGA 591 603 35 Antisense
TACGCACACGCTCGACGTGGATGCC 367 649 45 Antisense
CCACCCTCTCCGCTATTAAGGGAGT 558 271 74 Antisense
CCCTCTCCGCTATTAAGGGAGTGAT 318 259 77 Antisense
CGCTATTAAGGGAGTGATCGGAGCC 367 253 84 Antisense
TGATCGGAGCCGGAGAAGAATTCTC 360 563 98 Antisense
AAGAATTCTCGATCTCCTACGGATC 51 153 113 Antisense
TCTCGATCTCCTACGGATCCAAGGT 612 611 119 Antisense
CTCGATCTCCTACGGATCCAAGGTT 417 233 120 Antisense
TTAGCGAGGAGCTCACTCTTGGAGA 210 681 146 Antisense
CGAGGAGCTCACTCTTGGAGAATGC 15 251 150 Antisense
Sequence Source Affymetrix Proprietary Database