[Home] | [Total List]

[173931_s_at] ribosomal protein L1

Description AV197343 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0041.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV197343 /WB_GENE_ID=B0041.4 /WP=CE07669 /CHR=1 /FEA=Genomic Cluster /GEN=rpl-4 /DEF=ribosomal protein L1; Caenorhabditis elegans cDNA clone:yk665b2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 11      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 22      4grp_total > 25      6grp_highest_sub > De      6grp_cgc > 71      6grp_high1_sub > De      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14857
1 2 3 4 range
A 25918.1
(-3)
P 		36282.9
(3)
P 		31870.9
(0.4)
P 		35302.2
(2.4)
P 		10365
B 26997.1
(-3)
P 		28448.1
(0.6)
P 		28562.6
(0.9)
P 		29412
(3)
P 		2415
C 24249.9
(-2.8)
P 		26253.7
(-2)
P 		23715.9
(-3)
P 		38572.8
(3)
P 		14857
avr 25721.7
(-3) 		30328.2
(0.2) 		28049.8
(-1.4) 		34429
(3) 		8707

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11154
1 2 3 4 5 6 range
A 27049.8
(3)
P 		23036
(0.1)
P 		24564
(1.2)
P 		22661
(-0.2)
P 		18834.6
(-3)
P 		20608.2
(-1.7)
P 		8215
B 22273.4
(2)
P 		23103.6
(3)
P 		21827.7
(1.5)
P 		22402.3
(2.2)
P 		17919.3
(-3)
P 		20088.4
(-0.5)
P 		5184
C 21555.6
(0.9)
P 		24144.5
(2.7)
P 		24595.3
(3)
P 		23755.4
(2.4)
P 		22654.8
(1.7)
P 		15895.6
(-3)
P 		8700
avr 23626.3
(3) 		23428
(2.7) 		23662.3
(3) 		22939.6
(2.1) 		19802.9
(-1.8) 		18864.1
(-3) 		4798
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4269
1 2 3 4 range
A 9436.8
(3)
P 		7876
(0.8)
P 		8331.7
(1.4)
P 		5167.6
(-3)
P 		4269
B 8609.2
(3)
P 		7026
(-1.1)
P 		6618.6
(-2.1)
P 		6267.7
(-3)
P 		2342
C 8027.4
(2.2)
P 		7548.1
(0.6)
P 		8265.7
(3)
P 		6504
(-3)
P 		1762
avr 8691.1
(3) 		7483.4
(0.3) 		7738.7
(0.9) 		5979.8
(-3) 		2711

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3416
1 2 3 4 5 6 range
A 4986.4
(-3)
P 		8192.7
(3)
P 		5349.5
(-2.3)
P 		5747.4
(-1.6)
P 		5683.5
(-1.7)
P 		5017.4
(-2.9)
P 		3206
B 7750
(3)
P 		7690.2
(2.9)
P 		5300.4
(-3)
P 		5933.6
(-1.4)
P 		7280.4
(1.8)
P 		7490.9
(2.4)
P 		2450
C 7989.7
(3)
P 		7367.2
(1.8)
P 		6259.9
(-0.2)
P 		4777.2
(-3)
P 		7330.8
(1.8)
P 		5321.2
(-2)
P 		3213
avr 6908.7
(0.8) 		7750
(3) 		5636.6
(-2.6) 		5486.1
(-3) 		6764.9
(0.4) 		5943.2
(-1.8) 		2264
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173931_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22950
Sequence Type Exemplar sequence
Representative Public ID AV197343 NCBI
Target Description AV197343 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=B0041.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV197343 /WB_GENE_ID=B0041.4 /WP=CE07669 /CHR=1 /FEA=Genomic Cluster /GEN=rpl-4 /DEF=ribosomal protein L1; Caenorhabditis elegans cDNA clone:yk665b2 : 5prime 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_059015(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059015 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-4) (rpl-4) mRNA, complete cds. 11/11 None
SNAP00000016531 ENSEMBL cdna:SNAP chromosome:CEL140:I:4645738:4646958:-1 11/11 None
GENEFINDER00000016545 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4645738:4646958:-1 11/11 None
B0041.4.2 ENSEMBL cdna:known chromosome:CEL140:I:4645632:4646964:-1 gene:B0041.4 11/11 None
B0041.4.3 ENSEMBL cdna:known chromosome:CEL140:I:4645642:4646966:-1 gene:B0041.4 11/11 None
B0041.4.1 ENSEMBL cdna:known chromosome:CEL140:I:4645642:4646964:-1 gene:B0041.4 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:4645724-4646959(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein L1
Gene Symbol rpl-4
Ensembl B0041.4
Entrez Gene 172074 Entrez gene
SwissProt O02056 EMBL-EBI
WormBase CE07669 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258715_AT 60S ribosomal protein L4/L1 (RPL4A) at
DROSOPHILA_2:1627988_AT Ribosomal protein L4 dm
DROSGENOME1:154056_AT Ribosomal protein L4 dm
CHICKEN:GGAAFFX.12906.1.S1_S_AT ribosomal protein L4 gga
CHICKEN:GGAAFFX.20130.1.S1_S_AT ribosomal protein L4 gga
HG-U95AV2:33485_AT ribosomal protein L4 hs
HG-U133_PLUS_2:211710_X_AT ribosomal protein L4 hs
HG-U133A:211710_X_AT ribosomal protein L4 hs
HG-U133A_2:211710_X_AT ribosomal protein L4 hs
HG-U133A_2:200089_S_AT ribosomal protein L4 hs
PLASMODIUM_ANOPHELES:200089_S_AT ribosomal protein L4 hs
HG-U133A:200089_S_AT ribosomal protein L4 hs
HG-U133_PLUS_2:200089_S_AT ribosomal protein L4 hs
HG-FOCUS:200089_S_AT ribosomal protein L4 hs
HG-U133B:200089_S_AT ribosomal protein L4 hs
U133_X3P:200089_S_AT ribosomal protein L4 hs
HG-U133A:201154_X_AT ribosomal protein L4 hs
HG-U133_PLUS_2:201154_X_AT ribosomal protein L4 hs
HG-U133A_2:201154_X_AT ribosomal protein L4 hs
HU35KSUBC:RC_D51393_F_AT ribosomal protein L4 hs
HU35KSUBC:RC_C14120_F_AT ribosomal protein L4 hs
HUGENEFL:D23660_AT ribosomal protein L4 hs
U133_X3P:HS.286.4.A1_3P_S_AT ribosomal protein L4 hs
HG-U95C:52028_AT ribosomal protein L4 hs
HU35KSUBA:AA328993_S_AT Mitogen-activated protein kinase kinase kinase 13 hs
HU35KSUBC:RC_W60314_AT Mitogen-activated protein kinase kinase kinase 13 hs
HU35KSUBD:RC_AA424031_AT Mitogen-activated protein kinase kinase kinase 13 hs
U133_X3P:HS2.406946.1.S1_3P_AT Mitogen-activated protein kinase kinase kinase 13 hs
U133_X3P:HS.57776.0.S1_3P_AT Mitogen-activated protein kinase kinase kinase 13 hs
U133_X3P:HS.104558.0.A1_3P_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U133_PLUS_2:1562440_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U133_PLUS_2:226190_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U133B:226190_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U133_PLUS_2:226556_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U133B:226556_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U95B:46133_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U95B:56804_AT Mitogen-activated protein kinase kinase kinase 13 hs
HG-U95D:87670_AT Mitogen-activated protein kinase kinase kinase 13 hs
HU35KSUBA:AA404302_AT Mitogen-activated protein kinase kinase kinase 13 hs
MOUSE430_2:1425183_A_AT ribosomal protein L4 mm
MOE430A:1425183_A_AT ribosomal protein L4 mm
MOUSE430A_2:1425183_A_AT ribosomal protein L4 mm
MU11KSUBA:C80263_RC_F_AT ribosomal protein L4 mm
MU19KSUBA:TC14840_S_AT Ribosomal protein L4, mRNA (cDNA clone MGC:6283 IMAGE:2648518) mm
MU19KSUBA:TC14843_AT Ribosomal protein L4, mRNA (cDNA clone MGC:6283 IMAGE:2648518) mm
MU19KSUBC:TC37664_AT Ribosomal protein L4, mRNA (cDNA clone MGC:6283 IMAGE:2648518) mm
MU19KSUBC:TC41175_F_AT Ribosomal protein L4, mRNA (cDNA clone MGC:6283 IMAGE:2648518) mm
RG-U34A:RC_AA850940_AT ribosomal protein L4 rn
RAE230A:1398749_AT ribosomal protein L4 rn
RAT230_2:1398749_AT ribosomal protein L4 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 AAC24253 Ribosomal protein, large subunit protein 4 [Caenorhabditis elegans] ref|NP_491416.1| Ribosomal Protein, Large subunit family member (rpl-4) [Caenorhabditis elegans] sp|O02056|RL4_CAEEL 60S ribosomal protein L4 0.0
blast CAE74484 Hypothetical protein CBG22235 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002136 EMBL-EBI Ribosomal protein L4/L1e 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173931_S_AT
gtcccacttgttgtttccgacaaggtcgaaagcttccgcaagaccaaggaggccgtcgtc
ttcctccgtcgctcccacttgtgggctgatatcgagaaggtttacaactcgaagagaaac
cgcgccggaaagggaaagctccgcaaccgtcaacacaagcagaagctcggaccagttgtt
atctacggacaagatgctgagtgcgctcgtgccttccgcaacatcccaggagtcgatgtc
atgaatgttgagagactcaaccttctcaagctcgccccaggaggacatctcggacgtctt
atcatctggaccgagtctgccttcaagaagcttgataccatctacggaaccaccgttgcc
aactcttctcaactcaagaagggatggtctgtcccactcccaatcatggccaactccgac
ttctcccgcatcatccgttccgaagaggtcgttaaggctatcagagctccaaagaagaac
ccagtgcttccaaaggtccaccgcaacccactcaagaagagaaccctcttgtacaagttg
aacccatatgcttctatcctccgcaaggcttcaaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCCACTTGTTGTTTCCGACAAGG 378 471 458 Antisense
GCTTCCGCAAGACCAAGGAGGCCGT 100 307 489 Antisense
GTCGCTCCCACTTGTGGGCTGATAT 234 475 525 Antisense
CAACTCGAAGAGAAACCGCGCCGGA 21 189 562 Antisense
TCCGCAACCGTCAACACAAGCAGAA 53 597 597 Antisense
AAGCTCGGACCAGTTGTTATCTACG 34 149 620 Antisense
ACAAGATGCTGAGTGCGCTCGTGCC 597 113 646 Antisense
AGGACATCTCGGACGTCTTATCATC 568 55 739 Antisense
TTATCATCTGGACCGAGTCTGCCTT 646 677 756 Antisense
TTGCCAACTCTTCTCAACTCAAGAA 166 697 813 Antisense
TTCTATCCTCCGCAAGGCTTCAAAG 97 675 1009 Antisense
Sequence Source Affymetrix Proprietary Database