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[176904_s_at]

Description Y24D9A.D /REP_DB=WormBase Gene ID /WP=CE21459 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60465.1
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 13      4grp_high_8_8 > 23      6grp_highest_nonorm > 09      6grp_total > 42      4grp_total > 16      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11260
1 2 3 4 range
A 27426.6
(-3)
P 		31048.4
(-0.1)
P 		32756.7
(1.3)
P 		34935.3
(3)
P 		7509
B 27518.3
(-3)
P 		28748.8
(-1.8)
P 		31134.2
(0.4)
P 		33908.7
(3)
P 		6390
C 24486.1
(-3)
P 		27469.6
(-1.4)
P 		28398.1
(-0.9)
P 		35746.1
(3)
P 		11260
avr 26477
(-3) 		29088.9
(-1.1) 		30763
(0.1) 		34863.4
(3) 		8386

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8791
1 2 3 4 5 6 range
A 22000
(-0.8)
P 		22320.2
(-0.4)
P 		25178.6
(3)
P 		23600.9
(1.1)
P 		20126.2
(-3)
P 		23123.7
(0.6)
P 		5052
B 24273.6
(1.2)
P 		23027.9
(0.2)
P 		26616.9
(3)
P 		20261.4
(-1.9)
P 		19437.6
(-2.6)
P 		18904.6
(-3)
P 		7712
C 22015.1
(0.3)
P 		23852.8
(1.7)
P 		25553.5
(3)
P 		22560.6
(0.7)
P 		21959.4
(0.2)
P 		17826.3
(-3)
P 		7727
avr 22762.9
(-0.1) 		23067
(0.2) 		25783
(3) 		22141
(-0.7) 		20507.7
(-2.4) 		19951.5
(-3) 		5832
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4872
1 2 3 4 range
A 9986
(3)
P 		6739.8
(-1)
P 		8563.2
(1.2)
P 		5113.8
(-3)
P 		4872
B 8775.4
(3)
P 		7100.3
(-3)
P 		7214.5
(-2.6)
P 		7226
(-2.5)
P 		1675
C 8105.6
(0.2)
P 		7897.7
(-0.1)
P 		9897.6
(3)
P 		6027.3
(-3)
P 		3870
avr 8955.7
(3) 		7245.9
(-0.6) 		8558.4
(2.2) 		6122.4
(-3) 		2833

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4391
1 2 3 4 5 6 range
A 4055.5
(-3)
P 		7938.2
(3)
P 		5483.4
(-0.8)
P 		5985.7
(-0)
P 		6073.2
(0.1)
P 		5629.9
(-0.6)
P 		3883
B 8446
(3)
P 		7665
(1.5)
P 		6463.4
(-0.9)
P 		5366.5
(-3)
P 		7897.2
(1.9)
P 		7049.5
(0.3)
P 		3080
C 8160
(3)
P 		7278.2
(1.5)
P 		6503.8
(0.3)
P 		4537
(-3)
P 		7105.7
(1.3)
P 		5967.5
(-0.6)
P 		3623
avr 6887.2
(1.1) 		7627.1
(3) 		6150.2
(-0.8) 		5296.4
(-3) 		7025.4
(1.5) 		6215.6
(-0.6) 		2331
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176904_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19152
Sequence Type Exemplar sequence
Representative Public ID Y24D9A.D NCBI
Target Description Y24D9A.D /REP_DB=WormBase Gene ID /WP=CE21459 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60465.1
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) NR_002391(11), NM_171316(11), NM_171904(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NR_002391 NCBI Caenorhabditis elegans rpl-7A, miscRNA. 11/11 None
NM_171316 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-7A) (rpl-7A) mRNA, complete cds. 11/11 A 
NM_171904 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-7A) (rpl-7A) mRNA, complete cds. 10/11 A 
SNAP00000027688 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4389169:4391633:-1 11/11 None
GENEFINDER00000027694 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4389169:4390622:-1 11/11 None
Y24D9A.4a.1 ENSEMBL cdna:known chromosome:CEL140:IV:4389128:4390595:-1 gene:Y24D9A.4 11/11 A 
Y24D9A.4a.2 ENSEMBL cdna:known chromosome:CEL140:IV:4389128:4390939:-1 gene:Y24D9A.4 11/11 A 
Y24D9A.4c ENSEMBL cdna:known chromosome:CEL140:IV:4389169:4390583:-1 gene:Y24D9A.4 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171610 3/11 Cross Hyb Matching Probes None
NM_171609 3/11 Cross Hyb Matching Probes None
SNAP00000022300 2/11 Cross Hyb Matching Probes None
Y73B3A.18a 3/11 Cross Hyb Matching Probes A 
Y73B3A.18b 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:59300-60750(+) 78.68 78.68
chrIV:4389174-4392788(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y24D9A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM15612 Ribosomal protein, large subunit protein 7A, isoform c [Caenorhabditis elegans] ref|NP_741372.2| Ribosomal Protein, Large subunit family member (rpl-7A) [Caenorhabditis elegans] 1.0E-126
blast AAK84600 Ribosomal protein, large subunit protein 7A, isoform a [Caenorhabditis elegans] ref|NP_741371.2| Ribosomal Protein, Large subunit family member (rpl-7A) [Caenorhabditis elegans] sp|Q966C6|RL7A_CAEEL 60S ribosomal protein L7a 1.0E-124
blast AAK84600 Ribosomal protein, large subunit protein 7A, isoform a [Caenorhabditis elegans] ref|NP_741371.2| Ribosomal Protein, Large subunit family member (rpl-7A) [Caenorhabditis elegans] sp|Q966C6|RL7A_CAEEL 60S ribosomal protein L7a 1.0E-123
blast AAM15612 Ribosomal protein, large subunit protein 7A, isoform c [Caenorhabditis elegans] ref|NP_741372.2| Ribosomal Protein, Large subunit family member (rpl-7A) [Caenorhabditis elegans] 1.0E-122
blast CAE58523 Hypothetical protein CBG01675 [Caenorhabditis briggsae] 1.0E-122
Protein Domains
Database ID Description E-Value
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 5.5E-26
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 1.9E-24
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 5.5E-26
Sequence
Target Sequence 
>C. ELEGANS:176904_S_AT
ttgacagccagtccgctagacaagccttcaagctcttggacaagtaccgcccggagtcga
ccgaggccaagaagaaccgtctccgtgctcgtgccgaggctcgcgctgctggaaagaagg
aggaggtcaccaagagaccaaacaccgttcgccacggagtcaacaccatcaccagactcg
tcgagacccgcagagctcaattggttctcatcgctcacgacgtcaacccactcgagatcg
tgctccaccttccagccctctgcagaaagtacaacgttccatacgccatcatcaagggaa
aggcttccctcggaaccgtcgtccgcagaaagaccaccgccgctgttgctctcgtcgatg
tcaacccagaggacaaatctgccttgaacaagctcgtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGACAGCCAGTCCGCTAGACAAGC 431 701 551 Antisense
GTCCGCTAGACAAGCCTTCAAGCTC 120 477 561 Antisense
GACAAGCCTTCAAGCTCTTGGACAA 511 363 569 Antisense
CAAGCTCTTGGACAAGTACCGCCCG 632 185 579 Antisense
CCCGGAGTCGACCGAGGCCAAGAAG 410 257 600 Antisense
CGAGGCCAAGAAGAACCGTCTCCGT 653 247 612 Antisense
TCACCAAGAGACCAAACACCGTTCG 482 625 677 Antisense
CGGAGTCAACACCATCACCAGACTC 96 243 705 Antisense
GAGACCCGCAGAGCTCAATTGGTTC 488 393 733 Antisense
GAGCTCAATTGGTTCTCATCGCTCA 659 387 743 Antisense
AATCTGCCTTGAACAAGCTCGTCGA 557 167 926 Antisense
Sequence Source Affymetrix Proprietary Database