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[171957_x_at]

Description AU114715_rc /REP_DB=TREMBL Accession /GB=AU114715 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk727e7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 31      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 34      4grp_total > 16      6grp_highest_sub > 01_02_03      6grp_cgc > 34      6grp_high1_sub > 03      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15798
1 2 3 4 range
A 25243.3
(-3)
P 		34126.9
(3)
P 		31905.4
(1.5)
P 		33344.4
(2.5)
P 		8884
B 28811.1
(-1.3)
P 		27169
(-3)
P 		30907.8
(0.9)
P 		32968.2
(3)
P 		5799
C 23959.4
(-3)
P 		24836.7
(-2.7)
P 		25993.7
(-2.2)
P 		39757.3
(3)
P 		15798
avr 26004.6
(-3) 		28710.9
(-1.3) 		29602.3
(-0.7) 		35356.6
(3) 		9352

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7312
1 2 3 4 5 6 range
A 25627.5
(3)
P 		21168.2
(-1.1)
P 		24712.2
(2.2)
P 		22176.5
(-0.2)
P 		19138.3
(-3)
P 		20457.7
(-1.8)
P 		6489
B 20957.6
(-0.5)
P 		23193.8
(3)
P 		22409.1
(1.8)
P 		19488
(-2.8)
P 		19359
(-3)
P 		19528.1
(-2.7)
P 		3835
C 21164.2
(0.6)
P 		23125.9
(3)
P 		22089.1
(1.7)
P 		18315.6
(-3)
P 		21058.8
(0.4)
P 		20179.3
(-0.7)
P 		4810
avr 22583.1
(2.1) 		22496
(1.9) 		23070.1
(3) 		19993.4
(-2.7) 		19852
(-3) 		20055
(-2.6) 		3218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4310
1 2 3 4 range
A 9191.1
(3)
P 		7408
(0.5)
P 		8340.7
(1.8)
P 		4881
(-3)
P 		4310
B 9187.6
(3)
P 		6710.1
(-3)
P 		7162.1
(-1.9)
P 		7025.5
(-2.2)
P 		2478
C 7931.2
(0.1)
P 		7140.7
(-1.9)
P 		9059.6
(3)
P 		6703.7
(-3)
P 		2356
avr 8770
(3) 		7086.3
(-0.9) 		8187.5
(1.6) 		6203.4
(-3) 		2567

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4182
1 2 3 4 5 6 range
A 4724.2
(-3)
P 		7528.5
(3)
P 		5381.8
(-1.6)
P 		5624.5
(-1.1)
P 		5775.1
(-0.8)
P 		4980.8
(-2.5)
P 		2804
B 7292.2
(1.7)
P 		7720.3
(2.7)
P 		5441.6
(-2.4)
P 		5161.7
(-3)
P 		7865.3
(3)
P 		7281.9
(1.7)
P 		2704
C 7844.7
(3)
P 		7056.4
(1.9)
P 		5622.1
(-0.2)
P 		3683.3
(-3)
P 		6814.3
(1.5)
P 		6755.2
(1.4)
P 		4161
avr 6620.4
(1.1) 		7435.1
(3) 		5481.8
(-1.5) 		4823.2
(-3) 		6818.2
(1.6) 		6339.3
(0.5) 		2612
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171957_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28072
Sequence Type Exemplar sequence
Representative Public ID AU114715 NCBI
Target Description AU114715_rc /REP_DB=TREMBL Accession /GB=AU114715 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk727e7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074459
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
C06B8.8.2 ENSEMBL cdna:known chromosome:CEL140:V:15514751:15515394:1 gene:C06B8.8 A 
SNAP00000044325 ENSEMBL cdna:SNAP chromosome:CEL140:V:15514780:15515264:1 None
C06B8.8.3 ENSEMBL cdna:known chromosome:CEL140:V:15514751:15541072:1 gene:C06B8.8 A 
NM_074459 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-38) (rpl-38) mRNA, complete cds. A 
C06B8.8.1 ENSEMBL cdna:known chromosome:CEL140:V:15514764:15515358:1 gene:C06B8.8 A 
GENEFINDER00000044331 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15514780:15515264:1 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:15514750-15515254(+) 75.49 75.49
Public Domain and Genome References
Gene Title
Gene Symbol rpl-38
Ensembl C06B8.8
Entrez Gene 180044 Entrez gene
SwissProt O17570 EMBL-EBI
WormBase CE20485 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18595_AT 60S ribosomal protein L38 (RPL38A) at
ATH1-121501:260538_AT 60S ribosomal protein L38 (RPL38A) at
HG-U133A:202029_X_AT ribosomal protein L38 hs
HG-U133_PLUS_2:202029_X_AT ribosomal protein L38 hs
HG-U133A_2:202029_X_AT ribosomal protein L38 hs
HUGENEFL:Z26876_AT ribosomal protein L38 hs
U133_X3P:G4506644_3P_AT ribosomal protein L38 hs
HG-U95AV2:34085_AT ribosomal protein L38 hs
HG-U133A_2:221943_X_AT Ribosomal protein L38 hs
HG-U133_PLUS_2:221943_X_AT Ribosomal protein L38 hs
HG-U133A:221943_X_AT Ribosomal protein L38 hs
MG-U74CV2:169427_I_AT ribosomal protein L38 mm
MOE430A:1433472_X_AT ribosomal protein L38 mm
MOUSE430A_2:1433472_X_AT ribosomal protein L38 mm
MOUSE430_2:1433472_X_AT ribosomal protein L38 mm
MG-U74AV2:99626_I_AT ribosomal protein L38 mm
MG-U74AV2:99627_R_AT ribosomal protein L38 mm
MU19KSUBB:TC26428_AT Ribosomal protein L38 (Rpl38), mRNA mm
RG-U34C:RC_AI176788_AT similar to 60S ribosomal protein L38 rn
RAE230A:1375632_AT similar to 60S ribosomal protein L38 rn
RAT230_2:1375632_AT similar to 60S ribosomal protein L38 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 CAB03853 Hypothetical protein C06B8.8 [Caenorhabditis elegans] ref|NP_506860.1| Ribosomal Protein, Large subunit family member (rpl-38) [Caenorhabditis elegans] sp|O17570|RL38_CAEEL 60S ribosomal protein L38 3.0E-32
blast CAE71621 Hypothetical protein CBG18585 [Caenorhabditis briggsae] 2.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR002675 EMBL-EBI Ribosomal L38e protein 1.3E-48
Sequence
Target Sequence 
>C. ELEGANS:171957_X_AT
attcagtagagccagtccttttatactgcgatctgttgagactatnnnnnctgttggcct
actggggtttaattacccaagtttgaggtaatccaccattgcgatgccaaaggaaatcaa
ggagatcaaagacttcttggtcaaggcccgtagaaaggatgccaagtccgtcaagataaa
gaagaactccaacaacaccaagttcaaggttcgctgcgccagctacctctacaccctcgt
cgtcgccgacaaggataaggccgagaagctgaagca

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCAGTAGAGCCAGTCCTTTTATA 435 11 13 Antisense
GTCCTTTTATACTGCGATCTGTTGA 77 477 27 Antisense
TGAGGTAATCCACCATTGCGATGCC 680 567 96 Antisense
ATCCACCATTGCGATGCCAAAGGAA 211 41 103 Antisense
AAGACTTCTTGGTCAAGGCCCGTAG 3 153 141 Antisense
TGGTCAAGGCCCGTAGAAAGGATGC 432 543 150 Antisense
GAAAGGATGCCAAGTCCGTCAAGAT 65 361 165 Antisense
AAAGAAGAACTCCAACAACACCAAG 620 121 190 Antisense
CACCAAGTTCAAGGTTCGCTGCGCC 25 203 208 Antisense
CCCTCGTCGTCGCCGACAAGGATAA 247 259 246 Antisense
AGGATAAGGCCGAGAAGCTGAAGCA 340 43 264 Antisense
Sequence Source Affymetrix Proprietary Database