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[172890_x_at]

Description W09C5.6A /REP_DB=WormBase Gene ID /WP=CE20168 /GEN=rpl-31 /TR=Q9U332 /GB=CAB63331.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ribosomal protein L31e
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 20      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 50      4grp_total > 17      6grp_highest_sub > 03_04      6grp_cgc > 93      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24006
1 2 3 4 range
A 26218
(-3)
P 		31705.3
(-1.6)
P 		31825.3
(-1.5)
P 		49236.9
(3)
P 		23019
B 26508.3
(-3)
P 		29721.1
(-0.7)
P 		32266.4
(1.1)
P 		34985.3
(3)
P 		8477
C 25230.5
(-3)
P 		27899.7
(-2.1)
P 		25742.5
(-2.8)
P 		42090.8
(3)
P 		16860
avr 25985.6
(-3) 		29775.4
(-1.6) 		29944.7
(-1.5) 		42104.3
(3) 		16119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8960
1 2 3 4 5 6 range
A 27375
(3)
P 		23018.2
(-1.1)
P 		27030.1
(2.7)
P 		25580.6
(1.3)
P 		20961.3
(-3)
P 		24574.2
(0.4)
P 		6414
B 25080.5
(3)
P 		22924.1
(1)
P 		24251.7
(2.2)
P 		23625.1
(1.6)
P 		19479.4
(-2.3)
P 		18732
(-3)
P 		6349
C 22132.4
(-1.9)
P 		23720.2
(-0.5)
P 		27692
(3)
P 		27247.7
(2.6)
P 		21997.7
(-2)
P 		20898.5
(-3)
P 		6794
avr 24862.6
(1.4) 		23220.8
(-0.4) 		26324.6
(3) 		25484.5
(2.1) 		20812.8
(-3) 		21401.6
(-2.4) 		5512
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2664
1 2 3 4 range
A 9546
(3)
P 		6882.4
(-3)
P 		8319.7
(0.2)
P 		7207.3
(-2.3)
P 		2664
B 8453.3
(3)
P 		7340.4
(-3)
P 		7476.9
(-2.3)
P 		7455.4
(-2.4)
P 		1113
C 8352
(1)
P 		8021.3
(-0)
P 		8972.1
(3)
P 		7097.2
(-3)
P 		1875
avr 8783.8
(3) 		7414.7
(-2.4) 		8256.2
(0.9) 		7253.3
(-3) 		1531

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3680
1 2 3 4 5 6 range
A 5046.4
(-3)
P 		8186.4
(3)
P 		5886.6
(-1.4)
P 		6487.8
(-0.2)
P 		6325.2
(-0.6)
P 		5983
(-1.2)
P 		3140
B 8726.8
(3)
P 		7630.5
(0.7)
P 		5889
(-3)
P 		6257.5
(-2.2)
P 		7914.2
(1.3)
P 		6985.1
(-0.7)
P 		2838
C 8203.5
(3)
P 		7237.7
(0.9)
P 		7048.1
(0.5)
P 		5479.5
(-3)
P 		7118.1
(0.6)
P 		6995.9
(0.3)
P 		2724
avr 7325.6
(1.7) 		7684.9
(3) 		6274.6
(-2.3) 		6074.9
(-3) 		7119.2
(0.9) 		6654.7
(-0.8) 		1610
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172890_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1900
Sequence Type Exemplar sequence
Representative Public ID W09C5.6A NCBI
Target Description W09C5.6A /REP_DB=WormBase Gene ID /WP=CE20168 /GEN=rpl-31 /TR=Q9U332 /GB=CAB63331.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ribosomal protein L31e
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_060990(11), NM_060991(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060990 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-31) (rpl-31) mRNA, complete cds. 11/11 A 
NM_060991 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-31) (rpl-31) mRNA, complete cds. 11/11 A 
SNAP00000012968 ENSEMBL cdna:SNAP chromosome:CEL140:I:13661110:13667244:-1 11/11 None
GENEFINDER00000013011 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13661110:13661803:-1 11/11 None
W09C5.6a.1 ENSEMBL cdna:known chromosome:CEL140:I:13661057:13661822:-1 gene:W09C5.6 11/11 A 
W09C5.6a.2 ENSEMBL cdna:known chromosome:CEL140:I:13661064:13662196:-1 gene:W09C5.6 11/11 A 
W09C5.6b.4 ENSEMBL cdna:known chromosome:CEL140:I:13661110:13661813:-1 gene:W09C5.6 9/11 A 
W09C5.6b.1 ENSEMBL cdna:known chromosome:CEL140:I:13661110:13661814:-1 gene:W09C5.6 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
W09C5.6b.3 8/11 Cross Hyb Matching Probes A 
W09C5.6b.5 6/11 Cross Hyb Matching Probes A 
W09C5.6b.2 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13661040-13661734(-) 100.0 100.0
Public Domain and Genome References
Ensembl W09C5.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB63334 Hypothetical protein W09C5.8 [Caenorhabditis elegans] ref|NP_493394.1| W09C5.8 [Caenorhabditis elegans] 7.0E-99
blast CAE72582 Hypothetical protein CBG19770 [Caenorhabditis briggsae] 2.0E-92
blast CAB63331 Hypothetical protein W09C5.6a [Caenorhabditis elegans] ref|NP_493391.1| Ribosomal Protein, Large subunit family member (rpl-31) [Caenorhabditis elegans] sp|Q9U332|RL31_CAEEL 60S ribosomal protein L31 7.0E-59
blast CAB63331 Hypothetical protein W09C5.6a [Caenorhabditis elegans] ref|NP_493391.1| Ribosomal Protein, Large subunit family member (rpl-31) [Caenorhabditis elegans] sp|Q9U332|RL31_CAEEL 60S ribosomal protein L31 4.0E-58
blast CAE72584 Hypothetical protein CBG19772 [Caenorhabditis briggsae] 6.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 6.0E-56
Pfam IPR004203 EMBL-EBI Cytochrome c oxidase subunit IV 1.7E-78
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 6.0E-56
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 2.0E-31
Sequence
Target Sequence 
>C. ELEGANS:172890_X_AT
agaacgagaagaagtcccgcagcaccatcaacgaggtcgtcacccgtgaatacaccattc
acatccacgcccgcatcagaggaatcggatccaagaagcgtgctccacgtgccatcgacg
agatcaagaagttcgccaagatccagatgaagaccaacgatgtgcgtgtcgacaccaagc
tcaacaagttcatctggtccaagggaatcaagaacgttccatacagagttcgtgtccgtc
tctcccgccgccgtaacgaggatgaggactccgctcaaaagctctac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAACGAGAAGAAGTCCCGCAGCAC 543 73 23 Antisense
GCAGCACCATCAACGAGGTCGTCAC 595 313 41 Antisense
TCGTCACCCGTGAATACACCATTCA 250 603 59 Antisense
TCCACGCCCGCATCAGAGGAATCGG 189 589 86 Antisense
ATCGGATCCAAGAAGCGTGCTCCAC 702 33 106 Antisense
TCCACGTGCCATCGACGAGATCAAG 608 587 126 Antisense
GACCAACGATGTGCGTGTCGACACC 232 383 174 Antisense
GCTCAACAAGTTCATCTGGTCCAAG 515 301 201 Antisense
GTTCCATACAGAGTTCGTGTCCGTC 356 441 238 Antisense
CCCGCCGCCGTAACGAGGATGAGGA 676 259 266 Antisense
TGAGGACTCCGCTCAAAAGCTCTAC 618 565 285 Antisense
Sequence Source Affymetrix Proprietary Database