[Home] | [Total List]

[188175_at]

Description C09H10.1 /REP_DB=WormBase Gene ID /WP=CE02130 /GEN=rpl-42 /TR=Q17879 /GB=CAA90433.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 43      4grp_total > 0      6grp_cgc > 90      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 18.8
(-2.8)
A 		51.5
(-0.6)
A 		15.5
(-3)
A 		105.5
(3)
A 		90
B 50.7
(0.8)
A 		54.9
(1.1)
A 		74.7
(3)
A 		10.7
(-3)
A 		64
C 65.7
(3)
A 		18.5
(-3)
A 		62.5
(2.6)
A 		48.7
(0.8)
A 		47
avr 45.1
(-1.4) 		41.6
(-3) 		50.9
(1.2) 		55
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 76.1
(3)
A 		4.1
(-3)
A 		41
(0.1)
A 		10.7
(-2.5)
A 		48.9
(0.7)
A 		62.1
(1.8)
A 		72
B 43.7
(0.3)
A 		36.1
(-0.4)
A 		74.7
(3)
A 		7
(-3)
A 		45.1
(0.4)
A 		8.1
(-2.9)
A 		68
C 18.1
(-1.2)
A 		40.3
(3)
A 		25.6
(0.2)
A 		27.6
(0.6)
A 		35.1
(2)
A 		8.4
(-3)
A 		32
avr 46
(2.8) 		26.8
(-0.8) 		47.1
(3) 		15.1
(-3) 		43
(2.2) 		26.2
(-0.9) 		32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 6.9
(-1.5)
A 		11.2
(0.8)
A 		4.1
(-3)
A 		15.4
(3)
A 		11
B 16.2
(2.6)
A 		13.6
(1.5)
A 		17.3
(3)
A 		2.3
(-3)
A 		15
C 21.8
(3)
A 		5.3
(-3)
A 		21.8
(3)
A 		8.2
(-1.9)
A 		17
avr 15
(3) 		10
(-1.7) 		14.4
(2.4) 		8.6
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 14
(2.5)
A 		1.5
(-3)
A 		8.9
(0.3)
A 		2.7
(-2.5)
A 		14.8
(2.9)
A 		15.1
(3)
A 		14
B 15.2
(1.9)
A 		12
(0.7)
A 		18.1
(2.9)
A 		1.8
(-3)
A 		18.3
(3)
A 		3
(-2.6)
A 		17
C 6.7
(-0.5)
A 		12.3
(3)
A 		6.5
(-0.7)
A 		5.5
(-1.3)
A 		11.3
(2.4)
A 		2.8
(-3)
A 		10
avr 12
(1.5) 		8.6
(-0.2) 		11.2
(1.1) 		3.3
(-3) 		14.8
(3) 		7
(-1.1) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188175_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3068
Sequence Type Exemplar sequence
Representative Public ID C09H10.1 NCBI
Target Description C09H10.1 /REP_DB=WormBase Gene ID /WP=CE02130 /GEN=rpl-42 /TR=Q17879 /GB=CAA90433.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
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_063972
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000010344 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11092767:11093733:1 None
NM_063972 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-42) (rpl-42) mRNA, complete cds. None
SNAP00000010327 ENSEMBL cdna:SNAP chromosome:CEL140:II:11092767:11093733:1 None
C09H10.1 ENSEMBL cdna:known chromosome:CEL140:II:11092767:11093733:1 gene:C09H10.1 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
chrII:11092314-11093730(+) 96.77 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rpl-42
Ensembl C09H10.1
Entrez Gene 191758 Entrez gene
SwissProt Q17879 EMBL-EBI
WormBase CE28533 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_496373 Ribosomal Protein, Large subunit family member (rpl-42) [Caenorhabditis elegans] 6.0E-70
blast CAA90433 Hypothetical protein C09H10.1 [Caenorhabditis elegans] 4.0E-59
blast CAA90433 Hypothetical protein C09H10.1 [Caenorhabditis elegans] 5.0E-44
blast NP_496373 Ribosomal Protein, Large subunit family member (rpl-42) [Caenorhabditis elegans] 1.0E-42
Sequence
Target Sequence 
>C. ELEGANS:188175_AT
atttttctcatatctaccgttttggagcgcaaatatctcttttttgcgccgccatttttt
cagaagctggtggtttcttgataatagaaaatcattaaatgataatggctccagtattga
aaggcagaaaagcttcgatagctggattaaagaaaggacgcgctacccaagcaagaaaga
gagaagaagcgaggatgagatcagtcacgttaccctaactagaggtggaaaaaacaccgt
cgatgaggacgccacttcgcaagtcactgctgctgctgcaaatccggctcaagccccgtc
tgcttcgatctccggtaactttaacatttcccactggcttttaggctttggtaactctgt
gcaaaatacggtagctcaacaggtcggagcttcaaccagtgtcgtctctgctccaatgtc
aaaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTTTTCTCATATCTACCGTTTTGG 201 13 120 Antisense
GCAAATATCTCTTTTTTGCGCCGCC 404 317 148 Antisense
GCGCCGCCATTTTTTCAGAAGCTGG 482 287 165 Antisense
TAAAGAAAGGACGCGCTACCCAAGC 50 641 267 Antisense
GGATGAGATCAGTCACGTTACCCTA 393 513 312 Antisense
ACACCGTCGATGAGGACGCCACTTC 513 89 353 Antisense
CTGCTTCGATCTCCGGTAACTTTAA 132 237 419 Antisense
TAACTTTAACATTTCCCACTGGCTT 322 639 435 Antisense
GGCTTTTAGGCTTTGGTAACTCTGT 107 535 455 Antisense
ACAGGTCGGAGCTTCAACCAGTGTC 648 107 498 Antisense
TCGTCTCTGCTCCAATGTCAAAAGA 341 605 521 Antisense
Sequence Source Affymetrix Proprietary Database