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[173953_at]

Description CE16F5 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C28C12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89130 /WB_GENE_ID=C28C12.9 /WP=CE04116 /CHR=4 /FEA=Genomic Cluster /GEN=gei-9 /DEF=CEL16F5 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm16f5 5prime, mRNA sequence.
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 97      4grp_highest_8_8 > 05      4grp_high_8_8 > 29      6grp_highest_nonorm > 93      6grp_total > 97      4grp_total > 25      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 214
1 2 3 4 range
A 293.1
(-3)
P 		401.5
(3)
P 		354.1
(0.4)
P 		344.4
(-0.2)
P 		108
B 316.1
(-0.9)
P 		242.5
(-2.9)
P 		239.8
(-3)
P 		453.5
(3)
P 		214
C 248.1
(-3)
P 		374.2
(3)
P 		358.5
(2.3)
P 		311.3
(0)
P 		126
avr 285.8
(-3) 		339.4
(0.8) 		317.5
(-0.7) 		369.7
(3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 569
1 2 3 4 5 6 range
A 358.8
(-1.7)
P 		232.1
(-3)
P 		355.8
(-1.7)
P 		438
(-0.8)
P 		637.9
(1.3)
P 		801
(3)
P 		569
B 338
(-2.9)
P 		330.7
(-3)
P 		358.9
(-2.6)
P 		351.5
(-2.7)
P 		643.9
(1.1)
P 		789.8
(3)
P 		459
C 244.5
(-3)
P 		339.8
(-1.7)
P 		340.1
(-1.7)
P 		483.3
(0.1)
P 		492.9
(0.3)
P 		701.9
(3)
P 		457
avr 313.8
(-2.8) 		300.9
(-3) 		351.6
(-2.3) 		424.3
(-1.4) 		591.6
(0.8) 		764.2
(3) 		463
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 106.7
(3)
P 		87.2
(0.9)
P 		92.6
(1.5)
P 		50.4
(-3)
P 		56
B 100.8
(3)
P 		59.9
(-2.4)
P 		55.6
(-3)
P 		96.6
(2.4)
P 		45
C 82.1
(-0.5)
P 		107.6
(1.6)
P 		124.9
(3)
P 		52.5
(-3)
P 		72
avr 96.5
(3) 		84.9
(0.7) 		91
(1.9) 		66.5
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 228
1 2 3 4 5 6 range
A 66.1
(-3)
P 		82.5
(-2.2)
P 		77.5
(-2.5)
P 		111.1
(-0.9)
P 		192.5
(2.9)
P 		195
(3)
P 		129
B 117.6
(-2.1)
P 		110.1
(-2.3)
P 		87.2
(-3)
P 		93.1
(-2.8)
P 		261.6
(2)
P 		294.5
(3)
P 		207
C 90.6
(-2.8)
P 		103.7
(-2.3)
P 		86.6
(-3)
P 		97.2
(-2.6)
P 		159.5
(-0.1)
P 		235
(3)
P 		148
avr 91.4
(-2.7) 		98.8
(-2.4) 		83.8
(-3) 		100.5
(-2.4) 		204.5
(1.6) 		241.5
(3) 		158
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173953_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24782
Sequence Type Exemplar sequence
Representative Public ID CE16F5 NCBI
Target Description CE16F5 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C28C12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89130 /WB_GENE_ID=C28C12.9 /WP=CE04116 /CHR=4 /FEA=Genomic Cluster /GEN=gei-9 /DEF=CEL16F5 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm16f5 5prime, mRNA sequence.
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_069050(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069050 NCBI Caenorhabditis elegans C28C12.12 (C28C12.12) mRNA, complete cds. 11/11 None
C28C12.12.1 ENSEMBL cdna:known chromosome:CEL140:IV:8494544:8496345:-1 gene:C28C12.12 11/11 None
C28C12.12.2 ENSEMBL cdna:known chromosome:CEL140:IV:8494598:8496347:-1 gene:C28C12.12 10/11 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
chrIV:8494562-8498812(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28C12.12
Entrez Gene 177653 Entrez gene
SwissProt Q95QT5 EMBL-EBI
WormBase CE28891 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK95870 Hypothetical protein C28C12.12 [Caenorhabditis elegans] ref|NP_501451.1| C28C12.12 [Caenorhabditis elegans] 0.0
blast T15680 hypothetical protein C28C12.9 - Caenorhabditis elegans 0.0
blast CAE69451 Hypothetical protein CBG15642 [Caenorhabditis briggsae] 1.0E-44
Sequence
Target Sequence 
>C. ELEGANS:173953_AT
tatttagaagctcctaacctgccactttttcctatagaaaatctcatatttatttacaat
tttcccgcttttcgaagaattgatctccctgttccccagtgctttctacgttcatttata
gaagtacgtgttggcttttttcatttcactttcaaaaatctcgacgtctatttacggtgt
ttttacaatgcttccgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTTAGAAGCTCCTAACCTGCCAC 340 661 2911 Antisense
TTTTCCCGCTTTTCGAAGAATTGAT 691 671 2970 Antisense
TTCGAAGAATTGATCTCCCTGTTCC 45 695 2981 Antisense
CCAGTGCTTTCTACGTTCATTTATA 171 273 3006 Antisense
AGAAGTACGTGTTGGCTTTTTTCAT 571 73 3030 Antisense
GTACGTGTTGGCTTTTTTCATTTCA 67 459 3034 Antisense
GTTGGCTTTTTTCATTTCACTTTCA 507 435 3040 Antisense
TTCACTTTCAAAAATCTCGACGTCT 296 687 3055 Antisense
AAATCTCGACGTCTATTTACGGTGT 575 89 3066 Antisense
TCTCGACGTCTATTTACGGTGTTTT 177 609 3069 Antisense
TACGGTGTTTTTACAATGCTTCCGT 463 647 3083 Antisense
Sequence Source Affymetrix Proprietary Database