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[190280_at] Ribosomal protein S12

Description T03D8.2 /REP_DB=WormBase Gene ID /WP=CE18920 /TR=Q9XTY5 /GB=CAB07406.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ribosomal protein S12
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 01      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 22      6grp_total > 23      4grp_total > 58      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1149
1 2 3 4 range
A 1374.8
(-2.3)
P 		2165.4
(3)
P 		1961.7
(1.6)
P 		1267.9
(-3)
P 		898
B 1349.6
(-1)
P 		1633.2
(0.8)
P 		1999.8
(3)
P 		1016.6
(-3)
P 		983
C 1364.9
(-1.1)
P 		2023.7
(3)
P 		1750
(1.3)
P 		1057.5
(-3)
P 		966
avr 1363.1
(-1.2) 		1940.8
(3) 		1903.8
(2.7) 		1114
(-3) 		827

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1545
1 2 3 4 5 6 range
A 2429.1
(3)
P 		1813.3
(-0)
P 		1953.1
(0.6)
P 		1779
(-0.2)
P 		1214.9
(-3)
P 		1368.1
(-2.2)
P 		1214
B 1968.3
(3)
P 		1645.5
(0.5)
P 		1424.9
(-1.3)
P 		1551.2
(-0.3)
P 		1418.6
(-1.3)
P 		1204.7
(-3)
P 		764
C 1825.2
(2.1)
P 		1563.9
(0.7)
P 		1993.3
(3)
P 		1873.9
(2.4)
P 		1403.9
(-0.2)
P 		884
(-3)
P 		1109
avr 2074.2
(3) 		1674.2
(0.4) 		1790.4
(1.2) 		1734.7
(0.8) 		1345.8
(-1.7) 		1152.3
(-3) 		922
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 432
1 2 3 4 range
A 500.6
(2.8)
P 		470
(2.2)
P 		512.8
(3)
P 		185.6
(-3)
P 		327
B 430.4
(2.2)
P 		403.4
(1.5)
P 		463.4
(3)
P 		216.6
(-3)
P 		247
C 451.8
(0.8)
P 		581.8
(2.6)
P 		609.9
(3)
P 		178.3
(-3)
P 		432
avr 460.9
(1.8) 		485.1
(2.2) 		528.7
(3) 		193.5
(-3) 		335

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 389
1 2 3 4 5 6 range
A 447.8
(-0.8)
P 		644.9
(3)
P 		425.3
(-1.2)
P 		451.2
(-0.7)
P 		366.6
(-2.4)
P 		333.1
(-3)
P 		312
B 684.9
(3)
P 		547.7
(0.6)
P 		346
(-3)
P 		410.9
(-1.9)
P 		576.4
(1.1)
P 		449.2
(-1.2)
P 		339
C 676.5
(3)
P 		477.2
(-0.1)
P 		507.3
(0.3)
P 		376.8
(-1.7)
P 		454.3
(-0.5)
P 		295.9
(-3)
P 		381
avr 603.1
(3) 		556.6
(1.9) 		426.2
(-1.4) 		413
(-1.7) 		465.8
(-0.4) 		359.4
(-3) 		244
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190280_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13651
Sequence Type Exemplar sequence
Representative Public ID T03D8.2 NCBI
Target Description T03D8.2 /REP_DB=WormBase Gene ID /WP=CE18920 /TR=Q9XTY5 /GB=CAB07406.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ribosomal protein S12
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_075622(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075622 NCBI Caenorhabditis elegans T03D8.2 (T03D8.2) mRNA, complete cds. 11/11 None
SNAP00000040023 ENSEMBL cdna:SNAP chromosome:CEL140:V:20836131:20836751:1 11/11 None
GENEFINDER00000040028 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20833666:20836751:1 11/11 None
T03D8.2 ENSEMBL cdna:known chromosome:CEL140:V:20836131:20836819:1 gene:T03D8.2 11/11 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
chrV:20836130-20836751(+) 100.0 100.0
Public Domain and Genome References
Gene Title Ribosomal protein S12
Ensembl T03D8.2
Entrez Gene 180368 Entrez gene
SwissProt Q9XTY5 EMBL-EBI
WormBase CE18920 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:263502_S_AT ribosomal protein S12 mitochondrial family protein at
CANINE:1596726_AT similar to 28S ribosomal protein S12, mitochondrial precursor (S12mt) (MRP-S12) (MT-RPS12) cfa
CANINE_2:CFAAFFX.9368.1.S1_S_AT similar to 28S ribosomal protein S12, mitochondrial precursor (S12mt) (MRP-S12) (MT-RPS12) cfa
DROSOPHILA_2:1626534_AT technical knockout dm
DROSGENOME1:143018_AT technical knockout dm
HG-U133A:204331_S_AT mitochondrial ribosomal protein S12 hs
HG-U133_PLUS_2:204331_S_AT mitochondrial ribosomal protein S12 hs
HG-FOCUS:204331_S_AT mitochondrial ribosomal protein S12 hs
HG-U133A_2:204331_S_AT mitochondrial ribosomal protein S12 hs
HU35KSUBA:RC_AA086057_S_AT mitochondrial ribosomal protein S12 hs
HU35KSUBD:RC_AA257081_S_AT mitochondrial ribosomal protein S12 hs
HUGENEFL:Y11681_AT mitochondrial ribosomal protein S12 hs
U133_X3P:G11056055_3P_A_AT mitochondrial ribosomal protein S12 hs
U133_X3P:HS.9964.1.S1_3P_A_AT mitochondrial ribosomal protein S12 hs
U133_X3P:HS.9964.0.A1_3P_A_AT mitochondrial ribosomal protein S12 hs
HG-U133A_2:204330_S_AT mitochondrial ribosomal protein S12 hs
HG-U133_PLUS_2:204330_S_AT mitochondrial ribosomal protein S12 hs
HG-U133A:204330_S_AT mitochondrial ribosomal protein S12 hs
HG-U133A_2:210008_S_AT mitochondrial ribosomal protein S12 hs
HG-U133_PLUS_2:210008_S_AT mitochondrial ribosomal protein S12 hs
HG-U133A:210008_S_AT mitochondrial ribosomal protein S12 hs
HG-U95AV2:33214_AT mitochondrial ribosomal protein S12 hs
HG-U95AV2:33215_G_AT mitochondrial ribosomal protein S12 hs
HG-U133A_2:213840_S_AT Mitochondrial ribosomal protein S12 hs
HG-U133_PLUS_2:213840_S_AT Mitochondrial ribosomal protein S12 hs
HG-U133A:213840_S_AT Mitochondrial ribosomal protein S12 hs
HG-U95AV2:33216_AT Mitochondrial ribosomal protein S12 hs
U133_X3P:HS.9964.2.A1_3P_AT Mitochondrial ribosomal protein S12 hs
MU11KSUBB:Y11682_S_AT mitochondrial ribosomal protein S12 mm
MG-U74AV2:98547_AT mitochondrial ribosomal protein S12 mm
MG-U74BV2:165069_AT mitochondrial ribosomal protein S12 mm
MOE430A:1448799_S_AT mitochondrial ribosomal protein S12 mm
MOUSE430A_2:1448799_S_AT mitochondrial ribosomal protein S12 mm
MOUSE430_2:1448799_S_AT mitochondrial ribosomal protein S12 mm
MU19KSUBC:TC36973_AT Mitochondrial ribosomal protein S12, mRNA (cDNA clone MGC:41149 IMAGE:5058479) mm
RG-U34C:RC_AI233316_AT mitochondrial ribosomal protein S12 (predicted) rn
RAE230A:1372128_AT mitochondrial ribosomal protein S12 (predicted) rn
RAT230_2:1372128_AT mitochondrial ribosomal protein S12 (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
15935 small ribosomal subunit 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 CAB07407 Hypothetical protein T03D8.1b [Caenorhabditis elegans] ref|NP_001024097.1| NUMb related family member (num-1) [Caenorhabditis elegans] 0.0
blast CAD30449 Hypothetical protein T03D8.1c [Caenorhabditis elegans] ref|NP_001024098.1| NUMb related family member (num-1) [Caenorhabditis elegans] gb|AAK28741.1| C kinase adapter 1s [Caenorhabditis elegans] 1.0E-103
blast CAB07405 Hypothetical protein T03D8.1a [Caenorhabditis elegans] ref|NP_508021.1| NUMb related family member (num-1) [Caenorhabditis elegans] gb|AAK28740.1| C kinase adapter 1 [Caenorhabditis elegans] sp|Q9XTY6|NUMB1_CAEEL Numb related protein 1 (Protein kinase C adapter 1) (CKA1) 1.0E-103
blast CAB07406 Hypothetical protein T03D8.2 [Caenorhabditis elegans] ref|NP_508023.1| T03D8.2 [Caenorhabditis elegans] 7.0E-78
blast CAE61639 Hypothetical protein CBG05572 [Caenorhabditis briggsae] 2.0E-69
blast XP_795803 PREDICTED: similar to 28S ribosomal protein S12, mitochondrial precursor (S12mt) (MRP-S12) (MT-RPS12) [Strongylocentrotus purpuratus] 1.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR006032 EMBL-EBI Ribosomal protein S12/S23 3.7E-30
Pfam IPR006032 EMBL-EBI Ribosomal protein S12/S23 3.7E-30
Pfam IPR010449 EMBL-EBI NUMB phenylalanine-rich 2.3E-6
Sequence
Target Sequence 
>C. ELEGANS:190280_AT
ctcgtcttggaggatttctagccgggttttccagtacaatcagctcatttcttccgaaaa
cgaccgcgtctacactcttcacacatcaatcatcgcaattttcaactagttttcctgctt
ggagaaacaatttcttgcagtttattcactaccgaaatggcccaccaaaacgacgtgctc
gcagtaaggataagagcgcaatcagtggatattctcattacaaaggaattgtgctgaaaa
ccgtgattcgtcaccccaaaaagccaaactctggaaatcgaaagtgtgcaattgtgagat
tgtcgactggagcagaagtgtgcgcgtatattccgaatgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCGTCTTGGAGGATTTCTAGCCGG 67 231 20 Antisense
TTCTAGCCGGGTTTTCCAGTACAAT 149 689 35 Antisense
TCCAGTACAATCAGCTCATTTCTTC 49 591 49 Antisense
TCATTTCTTCCGAAAACGACCGCGT 109 617 64 Antisense
TCTTCACACATCAATCATCGCAATT 192 617 95 Antisense
TTTTCAACTAGTTTTCCTGCTTGGA 176 675 118 Antisense
TTATTCACTACCGAAATGGCCCACC 263 677 161 Antisense
AAATGGCCCACCAAAACGACGTGCT 311 119 174 Antisense
GCTGAAAACCGTGATTCGTCACCCC 98 287 252 Antisense
GTCACCCCAAAAAGCCAAACTCTGG 123 457 269 Antisense
AGTGTGCGCGTATATTCCGAATGTC 527 59 336 Antisense
Sequence Source Affymetrix Proprietary Database