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[190532_at] ribosomal protein

Description F53G12.10 /REP_DB=WormBase Gene ID /WP=CE11024 /TR=SW:O01802 /GB=AAB54165.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=ribosomal protein
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 40      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 41      4grp_total > 17      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 19345
1 2 3 4 range
A 30143.8
(-3)
P 		37113.3
(-0.6)
P 		36405.6
(-0.9)
P 		47877.3
(3)
P 		17734
B 29423.7
(-3)
P 		31219.3
(-2)
P 		33746.8
(-0.6)
P 		40399
(3)
P 		10975
C 28532.4
(-3)
P 		31577
(-2)
P 		29945.5
(-2.6)
P 		47497.3
(3)
P 		18965
avr 29366.6
(-3) 		33303.2
(-1.5) 		33366
(-1.5) 		45257.9
(3) 		15891

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10200
1 2 3 4 5 6 range
A 29084.6
(2.7)
P 		24820.9
(-0.8)
P 		29412.6
(3)
P 		26289.8
(0.4)
P 		22093.5
(-3)
P 		24685.9
(-0.9)
P 		7319
B 24748.3
(0.3)
P 		23534.8
(-0.6)
P 		28369.5
(3)
P 		23907.1
(-0.4)
P 		21342.2
(-2.3)
P 		20418.2
(-3)
P 		7951
C 22223.1
(-0.9)
P 		26853.4
(2.4)
P 		27626.9
(3)
P 		26093.5
(1.9)
P 		22891.3
(-0.4)
P 		19212.3
(-3)
P 		8415
avr 25352
(0.3) 		25069.7
(0.1) 		28469.7
(3) 		25430.1
(0.4) 		22109
(-2.4) 		21438.8
(-3) 		7031
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3967
1 2 3 4 range
A 10975.4
(3)
P 		8056.3
(-1.4)
P 		9517.1
(0.8)
P 		7008.3
(-3)
P 		3967
B 9383
(3)
P 		7710.4
(-3)
P 		7819.9
(-2.6)
P 		8609
(0.2)
P 		1673
C 9445
(0.5)
P 		9078.6
(-0.4)
P 		10436.9
(3)
P 		8008.8
(-3)
P 		2428
avr 9934.5
(3) 		8281.8
(-1.8) 		9258
(1) 		7875.4
(-3) 		2059

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3580
1 2 3 4 5 6 range
A 5361.5
(-3)
P 		8827.5
(3)
P 		6405.4
(-1.2)
P 		6667.7
(-0.7)
P 		6666.9
(-0.7)
P 		6010.2
(-1.9)
P 		3466
B 8611.2
(2.8)
P 		7833.7
(0.9)
P 		6889
(-1.6)
P 		6332.2
(-3)
P 		8671
(3)
P 		7613.8
(0.3)
P 		2339
C 8237.2
(3)
P 		8193.8
(2.9)
P 		7031.5
(0.6)
P 		5247.4
(-3)
P 		7407.3
(1.3)
P 		6431.5
(-0.6)
P 		2990
avr 7403.3
(0.6) 		8285
(3) 		6775.3
(-1.1) 		6082.4
(-3) 		7581.7
(1.1) 		6685.2
(-1.4) 		2203
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190532_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2592
Sequence Type Exemplar sequence
Representative Public ID F53G12.10 NCBI
Target Description F53G12.10 /REP_DB=WormBase Gene ID /WP=CE11024 /TR=SW:O01802 /GB=AAB54165.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=ribosomal 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_058275(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058275 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-7) (rpl-7) mRNA, complete cds. 11/11 None
GENEFINDER00000020933 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:110393:112227:1 11/11 None
SNAP00000020920 ENSEMBL cdna:SNAP chromosome:CEL140:I:111055:112227:1 11/11 None
F53G12.10.2 ENSEMBL cdna:known chromosome:CEL140:I:111036:112295:1 gene:F53G12.10 11/11 None
F53G12.10.1 ENSEMBL cdna:known chromosome:CEL140:I:111038:112295:1 gene:F53G12.10 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
chrI:111054-112227(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein
Gene Symbol rpl-7
Ensembl F53G12.10
Entrez Gene 171602 Entrez gene
SwissProt O01802 EMBL-EBI
WormBase CE11024 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16994_AT 60S ribosomal protein L7 (RPL7C) at
ATH1-121501:267213_AT 60S ribosomal protein L7 (RPL7C) at
CANINE:1585648_X_AT similar to 60S ribosomal protein L7 cfa
CANINE:1586050_X_AT similar to 60S ribosomal protein L7 cfa
CANINE_2:CFA.3266.1.S1_X_AT similar to 60S ribosomal protein L7 cfa
CANINE_2:CFAAFFX.31042.1.S1_X_AT similar to 60S ribosomal protein L7 cfa
CANINE_2:CFAAFFX.425.1.S1_AT similar to 60S ribosomal protein L7 cfa
DROSOPHILA_2:1629107_AT Ribosomal protein L7 dm
DROSGENOME1:143550_AT Ribosomal protein L7 dm
CHICKEN:GGA.4878.1.S1_AT ribosomal protein L7 gga
CHICKEN:GGAAFFX.12681.1.S1_S_AT ribosomal protein L7 gga
HG-U133_PLUS_2:217092_X_AT ribosomal protein L7 hs
HG-U133A_2:217092_X_AT ribosomal protein L7 hs
HG-U133A:217092_X_AT ribosomal protein L7 hs
HG-U133_PLUS_2:216588_AT ribosomal protein L7 hs
HG-U133A_2:216588_AT ribosomal protein L7 hs
HG-U133A:216588_AT ribosomal protein L7 hs
HG-U133_PLUS_2:200717_X_AT ribosomal protein L7 hs
HG-U133A:200717_X_AT ribosomal protein L7 hs
HG-U133A_2:200717_X_AT ribosomal protein L7 hs
HG-FOCUS:200717_X_AT ribosomal protein L7 hs
HUGENEFL:X57959_AT ribosomal protein L7 hs
U133_X3P:G4506658_3P_X_AT ribosomal protein L7 hs
U133_X3P:HS.247877.0.S1_3P_AT ribosomal protein L7 hs
U133_X3P:HS.247871.0.S1_3P_AT ribosomal protein L7 hs
U133_X3P:HS.247779.0.S1_3P_X_AT ribosomal protein L7 hs
U133_X3P:HS.247779.0.S1_3P_AT ribosomal protein L7 hs
U133_X3P:HS.196398.0.A1_3P_AT ribosomal protein L7 hs
U133_X3P:HS.153.1.A1_3P_X_AT ribosomal protein L7 hs
HG-U133A_2:212042_X_AT ribosomal protein L7 hs
HG-U133_PLUS_2:212042_X_AT ribosomal protein L7 hs
HG-U133A:212042_X_AT ribosomal protein L7 hs
HG-U133A_2:216580_AT ribosomal protein L7 hs
HG-U133_PLUS_2:216580_AT ribosomal protein L7 hs
HG-U133A:216580_AT ribosomal protein L7 hs
HG-U133_PLUS_2:239493_AT ribosomal protein L7 hs
HG-U133B:239493_AT ribosomal protein L7 hs
HG-U95AV2:36333_AT ribosomal protein L7 hs
HG-U95E:69247_AT ribosomal protein L7 hs
HG-U95E:80387_S_AT ribosomal protein L7 hs
RG-U34B:RC_AI009438_AT ribosomal protein L7 rn
RAE230A:1398917_AT ribosomal protein L7 rn
RAT230_2:1398917_AT ribosomal protein L7 rn
RAE230A:1375788_AT Ribosomal protein L7 rn
RAT230_2:1375788_AT Ribosomal protein L7 rn
RAT230_2:1394867_AT Ribosomal protein L7 rn
RAE230B:1394867_AT Ribosomal protein L7 rn
YEAST_2:1778133_S_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl7Ap and has similarity to E. coli L30 and rat L7 ribosomal proteins; contains a conserved C-terminal Nucleic acid Binding Domain (NDB2) Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6508 proteolysis 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
15934 large 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
4197 cysteine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
30528 transcription regulator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB54165 Ribosomal protein, large subunit protein 7 [Caenorhabditis elegans] ref|NP_490676.1| Ribosomal Protein, Large subunit family member (rpl-7) [Caenorhabditis elegans] sp|O01802|RL7_CAEEL 60S ribosomal protein L7 1.0E-140
blast CAE60314 Hypothetical protein CBG03905 [Caenorhabditis briggsae] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR000517 EMBL-EBI Ribosomal protein L30 1.8E-26
Pfam IPR000517 EMBL-EBI Ribosomal protein L30 1.8E-26
Sequence
Target Sequence 
>C. ELEGANS:190532_AT
aagacccaatacttcaagcgtgctgagaaatacgtccaggagtacagaaacgcccaaaag
gaaggactcagactcaagcgcgaggctgaggccaagggagacttctacgttccagctgag
cacaaggtcgccttcgtcgtcagaattcgcggtatcaaccagcttcatccaaagccaaga
aaggctctccagatcctccgtcttcgtcagatcaacaacggagtgttcgtcaagctgaac
aaggctactcttccacttctccgtatcatcgagccatacgtagcttggggttatccaaac
aacaagaccatccacgatctcctctacaagcgcggatacgccaaggttgacggaaaccgt
gtcccaatcaccgacaacaccatcgtcgagcagagcctcggaaagttcaacatcatctgt
cttgaggatttggcccacgagatcgccaccgtcggaccacacttcaaggaggccaccaac
ttcttgtggccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGACCCAATACTTCAAGCGTGCTG 556 153 139 Antisense
AGGACTCAGACTCAAGCGCGAGGCT 166 53 201 Antisense
CAAGGGAGACTTCTACGTTCCAGCT 40 183 231 Antisense
TCGCCTTCGTCGTCAGAATTCGCGG 37 599 266 Antisense
GAATTCGCGGTATCAACCAGCTTCA 1 325 281 Antisense
CCAAGAAAGGCTCTCCAGATCCTCC 204 275 313 Antisense
AGCTGAACAAGGCTACTCTTCCACT 208 81 371 Antisense
ACAACACCATCGTCGAGCAGAGCCT 672 111 512 Antisense
CTGTCTTGAGGATTTGGCCCACGAG 440 239 555 Antisense
TCGGACCACACTTCAAGGAGGCCAC 27 607 590 Antisense
GAGGCCACCAACTTCTTGTGGCCCT 240 405 607 Antisense
Sequence Source Affymetrix Proprietary Database