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[190162_at] Ribosomal Proteins L2

Description B0250.1 /REP_DB=WormBase Gene ID /WP=CE18478 /TR=Q9XVF7 /GB=CAB03792.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ribosomal Proteins L2
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 40      4grp_highest_8_8 > 13      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 42      4grp_total > 16      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17147
1 2 3 4 range
A 29823
(-3)
P 		37202
(-0.2)
P 		37544.4
(-0.1)
P 		45713
(3)
P 		15890
B 31753.6
(-3)
P 		34283.5
(-0.7)
P 		38255.6
(3)
P 		38241.8
(3)
P 		6502
C 28566.3
(-3)
P 		30847.6
(-2.1)
P 		29642.5
(-2.6)
P 		43907.5
(3)
P 		15341
avr 30047.6
(-3) 		34111
(-1.1) 		35147.5
(-0.6) 		42620.8
(3) 		12573

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13329
1 2 3 4 5 6 range
A 34737.7
(3)
P 		27621.5
(-1.6)
P 		32852.4
(1.8)
P 		28362.5
(-1.1)
P 		25431.1
(-3)
P 		27409.7
(-1.7)
P 		9307
B 26607.3
(-1)
P 		27175.6
(-0.7)
P 		35456.1
(3)
P 		26535.3
(-1)
P 		22657.3
(-2.8)
P 		22127.6
(-3)
P 		13329
C 26116.2
(-0.5)
P 		29079.6
(1.4)
P 		31401.3
(2.9)
P 		31606.5
(3)
P 		27393.4
(0.3)
P 		22168
(-3)
P 		9439
avr 29153.7
(0.4) 		27958.9
(-0.4) 		33236.6
(3) 		28834.8
(0.2) 		25160.6
(-2.2) 		23901.8
(-3) 		9335
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4167
1 2 3 4 range
A 10858.6
(3)
P 		8075.6
(-1)
P 		9814.8
(1.5)
P 		6691.5
(-3)
P 		4167
B 10126
(3)
P 		8467.2
(-2)
P 		8864.7
(-0.8)
P 		8149.4
(-3)
P 		1977
C 9456.3
(1.2)
P 		8868.9
(0)
P 		10331.3
(3)
P 		7403.5
(-3)
P 		2928
avr 10147
(3) 		8470.6
(-0.7) 		9670.3
(2) 		7414.8
(-3) 		2732

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3468
1 2 3 4 5 6 range
A 6403.6
(-3)
P 		9823.6
(3)
P 		7154.6
(-1.7)
P 		7193.4
(-1.6)
P 		7674
(-0.8)
P 		6673.4
(-2.5)
P 		3420
B 9258.1
(3)
P 		9045.6
(2.4)
P 		8609.8
(1.3)
P 		7028.3
(-3)
P 		9205.4
(2.9)
P 		8251.3
(0.3)
P 		2230
C 9680.1
(3)
P 		8873.1
(1.5)
P 		7992.2
(-0)
P 		6356.1
(-3)
P 		8864.1
(1.5)
P 		7420.9
(-1.1)
P 		3324
avr 8447.3
(1) 		9247.4
(3) 		7918.9
(-0.3) 		6859.3
(-3) 		8581.2
(1.3) 		7448.5
(-1.5) 		2388
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190162_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13740
Sequence Type Exemplar sequence
Representative Public ID B0250.1 NCBI
Target Description B0250.1 /REP_DB=WormBase Gene ID /WP=CE18478 /TR=Q9XVF7 /GB=CAB03792.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ribosomal Proteins L2
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_075539(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075539 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-2) (rpl-2) mRNA, complete cds. 11/11 A 
SNAP00000043590 ENSEMBL cdna:SNAP chromosome:CEL140:V:20477746:20481281:1 11/11 None
GENEFINDER00000043597 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20477746:20478810:1 11/11 None
B0250.1.1 ENSEMBL cdna:known chromosome:CEL140:V:20477735:20478859:1 gene:B0250.1 11/11 None
B0250.1.2 ENSEMBL cdna:known chromosome:CEL140:V:20477740:20478859:1 gene:B0250.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026174 7/11 Cross Hyb Matching Probes None
SNAP00000043584 7/11 Cross Hyb Matching Probes None
GENEFINDER00000043596 7/11 Cross Hyb Matching Probes None
B0250.3 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20477745-20478810(+) 100.0 100.0
chrV:20466399-20467464(-) 98.47 98.47
Public Domain and Genome References
Gene Title Ribosomal Proteins L2
Gene Symbol rpl-2
Ensembl B0250.1
Entrez Gene 180343 Entrez gene
SwissProt Q9XVF7 EMBL-EBI
WormBase CE18478 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:265805_S_AT 60S ribosomal protein L8 (RPL8A) at
ATGENOME1:16924_S_AT 60S ribosomal protein L8 (RPL8A) at
CANINE:1587333_AT similar to 60S ribosomal protein L8 cfa
CANINE_2:CFA.4446.1.S1_S_AT similar to 60S ribosomal protein L8 cfa
DROSOPHILA_2:1628775_S_AT Ribosomal protein L8 dm
DROSGENOME1:144032_AT Ribosomal protein L8 dm
CHICKEN:GGA.4650.1.S1_A_AT ribosomal protein L8 gga
HG-U95AV2:31505_AT ribosomal protein L8 hs
HG-U133_PLUS_2:200936_AT ribosomal protein L8 hs
HG-U133A_2:200936_AT ribosomal protein L8 hs
HG-U133A:200936_AT ribosomal protein L8 hs
HG-FOCUS:200936_AT ribosomal protein L8 hs
HUGENEFL:Z28407_AT ribosomal protein L8 hs
U133_X3P:G4506662_3P_AT ribosomal protein L8 hs
MU11KSUBA:U67771_F_AT ribosomal protein L8 mm
MU11KSUBB:W91634_RC_F_AT ribosomal protein L8 mm
MG-U74AV2:96575_AT ribosomal protein L8 mm
MOE430A:1417762_A_AT ribosomal protein L8 mm
MOUSE430A_2:1417762_A_AT ribosomal protein L8 mm
MOUSE430_2:1417762_A_AT ribosomal protein L8 mm
MU11KSUBB:MSA.3012.0_S_AT ribosomal protein L8 mm
MU19KSUBC:TC36162_AT Ribosomal protein L8 (Rpl8), mRNA mm
MU19KSUBC:TC36163_F_AT Ribosomal protein L8 (Rpl8), mRNA mm
MU19KSUBC:TC36163_I_AT Ribosomal protein L8 (Rpl8), mRNA mm
RAE230A:1371305_AT Ribosomal protein L8 rn
RAT230_2:1371305_AT Ribosomal protein L8 rn
YEAST_2:1773091_AT Protein component of the large (60S) ribosomal subunit, identical to Rpl2Ap and has similarity to E. coli L2 and rat L8 ribosomal proteins; expression is upregulated at low temperatures Sc
YEAST_2:1780178_S_AT Protein component of the large (60S) ribosomal subunit, identical to Rpl2Ap and has similarity to E. coli L2 and rat L8 ribosomal proteins; expression is upregulated at low temperatures Sc
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 CAB03792 Hypothetical protein B0250.1 [Caenorhabditis elegans] ref|NP_507940.1| Ribosomal Protein, Large subunit family member (rpl-2) [Caenorhabditis elegans] sp|Q9XVF7|RL8_CAEEL 60S ribosomal protein L8 1.0E-140
blast CAE61654 Hypothetical protein CBG05588 [Caenorhabditis briggsae] 1.0E-138
Protein Domains
Database ID Description E-Value
Pfam IPR002171 EMBL-EBI Ribosomal protein L2 1.4E-19
Pfam IPR002171 EMBL-EBI Ribosomal protein L2 1.2E-64
Sequence
Target Sequence 
>C. ELEGANS:190162_AT
ttccgcgacccatacaagtacaagaccgtgaagactaccgtcgtcgccgccgaaggaatg
cacactggacaattcatccattgtggagctaaggctcaaatccaaatcggaaacatcgtg
ccagtcggaaccctcccagaaggaaccaccatctgcaacgtcgagaacaagtccggagac
cgtggagtcatcgcccgtgcctctggtaactacgccaccgtcatcgcccacaacccagac
accaagaagacacgtattcgcctcccatccggagccaagaaggtcgttcaatcggtcaac
cgcgccatgattggactcgtcgctggaggaggacgtaccgacaagccacttctcaaggct
ggacgctcataccacaagtacaaggcaaagagaaacagctggccacgtgtcagaggagtt
gccatgaatccagtcgaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCGCGACCCATACAAGTACAAGA 198 697 199 Antisense
AAGACCGTGAAGACTACCGTCGTCG 585 151 220 Antisense
GCCGCCGAAGGAATGCACACTGGAC 586 285 244 Antisense
CGGAAACATCGTGCCAGTCGGAACC 262 243 306 Antisense
CTCCCAGAAGGAACCACCATCTGCA 379 233 331 Antisense
AGTCCGGAGACCGTGGAGTCATCGC 294 59 368 Antisense
CCATGATTGGACTCGTCGCTGGAGG 618 271 503 Antisense
GTACCGACAAGCCACTTCTCAAGGC 212 459 533 Antisense
GCTGGACGCTCATACCACAAGTACA 429 293 556 Antisense
AGAAACAGCTGGCCACGTGTCAGAG 148 73 589 Antisense
GGAGTTGCCATGAATCCAGTCGAAC 364 517 613 Antisense
Sequence Source Affymetrix Proprietary Database