[Home] | [Total List]

[174279_s_at] ribosomal protein

Description C35064_rc /REP_DB=TREMBL Accession /GB=C35064 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk423b5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 74      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 73      6grp_total > 65      4grp_total > 60      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 501
1 2 3 4 range
A 624.9
(3)
P 		515.9
(0.9)
P 		547.8
(1.5)
P 		318.6
(-3)
P 		306
B 576
(2)
P 		548.9
(0.5)
P 		595.7
(3)
P 		482.5
(-3)
P 		113
C 575.3
(0.1)
P 		585.1
(0.2)
P 		817.3
(3)
P 		316.8
(-3)
P 		501
avr 592.1
(1.7) 		550
(0.8) 		653.6
(3) 		372.6
(-3) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 360
1 2 3 4 5 6 range
A 421.5
(-3)
P 		499.6
(-1.3)
P 		702
(3)
P 		569.1
(0.2)
P 		458
(-2.2)
P 		515.7
(-1)
P 		281
B 639.9
(-0)
P 		597.1
(-1.1)
P 		760.6
(3)
P 		520.3
(-3)
P 		697.7
(1.4)
P 		723.5
(2.1)
P 		240
C 400.3
(-3)
P 		597.3
(0.4)
P 		416.9
(-2.7)
P 		746.1
(3)
P 		410.3
(-2.8)
P 		713.5
(2.4)
P 		346
avr 487.2
(-3) 		564.7
(-0.2) 		626.5
(2.1) 		611.8
(1.6) 		522
(-1.7) 		650.9
(3) 		164
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 238
1 2 3 4 range
A 227.5
(3)
P 		112
(-0.8)
P 		143.2
(0.2)
P 		46.6
(-3)
P 		181
B 183.7
(3)
P 		135.6
(-0.6)
P 		138
(-0.4)
P 		102.8
(-3)
P 		81
C 190.5
(0.6)
P 		168.2
(-0)
P 		284.8
(3)
P 		53.4
(-3)
P 		231
avr 200.6
(3) 		138.6
(0.2) 		188.7
(2.5) 		67.6
(-3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 206
1 2 3 4 5 6 range
A 77.7
(-3)
P 		177.7
(3)
P 		152.9
(1.5)
P 		144.3
(1)
P 		138.2
(0.6)
P 		125.6
(-0.1)
P 		100
B 222.6
(0.5)
P 		198.7
(-0.5)
P 		184.7
(-1.1)
P 		137.8
(-3)
P 		283.5
(3)
P 		269.8
(2.4)
P 		146
C 148.4
(-1.1)
P 		182.3
(0.4)
P 		106.1
(-3)
P 		150
(-1)
P 		132.8
(-1.8)
P 		238.9
(3)
P 		133
avr 149.6
(-2.5) 		186.2
(0.8) 		147.9
(-2.7) 		144
(-3) 		184.8
(0.6) 		211.4
(3) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174279_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21669
Sequence Type Exemplar sequence
Representative Public ID C35064 NCBI
Target Description C35064_rc /REP_DB=TREMBL Accession /GB=C35064 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk423b5 : 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_072780(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072780 NCBI Caenorhabditis elegans T23B12.2 (T23B12.2) mRNA, complete cds. 11/11 A 
SNAP00000042003 ENSEMBL cdna:SNAP chromosome:CEL140:V:8469854:8471421:1 11/11 None
GENEFINDER00000042022 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8469854:8471421:1 11/11 None
T23B12.2 ENSEMBL cdna:known chromosome:CEL140:V:8469854:8471536:1 gene:T23B12.2 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:8470541-8471437(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein
Ensembl T23B12.2
Entrez Gene 179230 Entrez gene
SwissProt O17005 EMBL-EBI
WormBase CE14028 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20099_AT ribosomal protein L4 family protein at
ATH1-121501:265594_AT ribosomal protein L4 family protein at
CANINE_2:CFA.21281.1.S1_S_AT similar to mitochondrial ribosomal protein L4 isoform a cfa
CANINE_2:CFAAFFX.27357.1.S1_AT similar to mitochondrial ribosomal protein L4 isoform a cfa
DROSOPHILA_2:1639937_AT mitochondrial ribosomal protein L4 dm
DROSGENOME1:154655_AT mitochondrial ribosomal protein L4 dm
HG-U133_PLUS_2:223743_S_AT mitochondrial ribosomal protein L4 hs
HG-U133B:223743_S_AT mitochondrial ribosomal protein L4 hs
HG-U133_PLUS_2:223742_AT mitochondrial ribosomal protein L4 hs
HG-U133B:223742_AT mitochondrial ribosomal protein L4 hs
HG-U133A:218105_S_AT mitochondrial ribosomal protein L4 hs
HG-U133_PLUS_2:218105_S_AT mitochondrial ribosomal protein L4 hs
HG-U133A_2:218105_S_AT mitochondrial ribosomal protein L4 hs
U133_X3P:G7705721_3P_S_AT mitochondrial ribosomal protein L4 hs
U133_X3P:G12653924_3P_AT mitochondrial ribosomal protein L4 hs
HG-U95B:45335_AT mitochondrial ribosomal protein L4 hs
HU35KSUBA:AA284709_AT Mitochondrial ribosomal protein L4 hs
MG-U74AV2:95736_AT mitochondrial ribosomal protein L4 mm
MOE430A:1416510_AT mitochondrial ribosomal protein L4 mm
MOUSE430A_2:1416510_AT mitochondrial ribosomal protein L4 mm
MOUSE430_2:1416510_AT mitochondrial ribosomal protein L4 mm
MU19KSUBA:TC20355_AT Mitochondrial ribosomal protein L4, mRNA (cDNA clone IMAGE:4986909) mm
MU19KSUBA:TC20836_I_AT Mitochondrial ribosomal protein L4, mRNA (cDNA clone IMAGE:4986909) mm
MU19KSUBA:TC20836_S_AT Mitochondrial ribosomal protein L4, mRNA (cDNA clone IMAGE:4986909) mm
MU19KSUBC:TC35572_AT Mitochondrial ribosomal protein L4, mRNA (cDNA clone IMAGE:4986909) mm
RG-U34C:RC_AI231471_AT mitochondrial ribosomal protein L4 (predicted) rn
RAE230A:1388366_AT mitochondrial ribosomal protein L4 (predicted) rn
RAT230_2:1388366_AT mitochondrial ribosomal protein L4 (predicted) 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 AAB69933 Hypothetical protein T23B12.2 [Caenorhabditis elegans] ref|NP_505181.1| T23B12.2 [Caenorhabditis elegans] 1.0E-168
blast CAE58393 Hypothetical protein CBG01522 [Caenorhabditis briggsae] 1.0E-153
blast XP_792959 PREDICTED: similar to mitochondrial ribosomal protein L4 isoform a [Strongylocentrotus purpuratus] 5.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR002136 EMBL-EBI Ribosomal protein L4/L1e 2.6E-11
Sequence
Target Sequence 
>C. ELEGANS:174279_S_AT
agcggtggacttgctgaagctcaacaagctcttccgtggctcaatgtgatgccagtgtat
ggtctgaattgcttctcattaatgaaatacgatactattgttctgtcacgaagtgcattg
gaaagagttgaagaacgacttctcacacaaatgcatagagctgggccgatgaataagaat
tcagatatatggactacaaggacaagattcttcaagaggcggaagcagaagaggatccat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCGGTGGACTTGCTGAAGCTCAAC 54 81 16 Antisense
GCTCTTCCGTGGCTCAATGTGATGC 362 301 43 Antisense
GCTCAATGTGATGCCAGTGTATGGT 139 303 54 Antisense
GTGTATGGTCTGAATTGCTTCTCAT 400 485 70 Antisense
GGTCTGAATTGCTTCTCATTAATGA 382 501 76 Antisense
ATACGATACTATTGTTCTGTCACGA 652 23 102 Antisense
TGTTCTGTCACGAAGTGCATTGGAA 314 563 114 Antisense
GTTGAAGAACGACTTCTCACACAAA 662 437 142 Antisense
AATGCATAGAGCTGGGCCGATGAAT 352 165 165 Antisense
AGGACAAGATTCTTCAAGAGGCGGA 222 55 214 Antisense
GAGGCGGAAGCAGAAGAGGATCCAT 679 405 231 Antisense
Sequence Source Affymetrix Proprietary Database