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[175439_at]

Description AV178927_rc /REP_DB=TREMBL Accession /GB=AV178927 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk585b11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 06      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 70      6grp_total > 15      4grp_total > 05      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 372
1 2 3 4 range
A 696.9
(0.4)
P 		485.1
(-3)
P 		637.7
(-0.5)
P 		857.3
(3)
P 		372
B 711.9
(0.3)
P 		669
(-0.6)
P 		564.6
(-3)
P 		829.8
(3)
P 		265
C 601.5
(-2.8)
P 		596.3
(-3)
P 		639.3
(-1.5)
P 		768.6
(3)
P 		172
avr 670.1
(-0.8) 		583.5
(-3) 		613.9
(-2.2) 		818.6
(3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 287
1 2 3 4 5 6 range
A 391.5
(3)
P 		351.3
(1.9)
P 		296
(0.3)
P 		196.6
(-2.4)
P 		253.2
(-0.8)
P 		175.8
(-3)
P 		216
B 432.3
(3)
P 		313.8
(-0.2)
P 		323.4
(0.1)
P 		236
(-2.3)
P 		265.4
(-1.5)
P 		208.9
(-3)
P 		223
C 462.7
(3)
P 		321.9
(-0.3)
P 		333.3
(-0)
P 		312.3
(-0.5)
P 		206.9
(-3)
P 		261.4
(-1.7)
P 		256
avr 428.8
(3) 		329
(0.2) 		317.6
(-0.1) 		248.3
(-2.1) 		241.8
(-2.3) 		215.4
(-3) 		213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 253.7
(3)
P 		105.3
(-3)
P 		166.7
(-0.5)
P 		125.5
(-2.2)
P 		148
B 227
(3)
P 		165.2
(-0.9)
P 		130.8
(-3)
P 		176.8
(-0.1)
P 		96
C 199.1
(1.5)
P 		171.5
(-0.3)
P 		222.8
(3)
P 		129.6
(-3)
P 		93
avr 226.6
(3) 		147.3
(-2.8) 		173.4
(-0.9) 		144
(-3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 72.2
(-0.9)
P 		124.9
(3)
P 		64.5
(-1.4)
P 		49.9
(-2.5)
P 		76.4
(-0.5)
P 		42.8
(-3)
P 		82
B 150.4
(3)
P 		104.4
(-0.1)
P 		78.5
(-1.9)
P 		62.5
(-3)
P 		107.8
(0.1)
P 		77.9
(-1.9)
P 		88
C 171.5
(3)
P 		98.2
(-1)
P 		84.8
(-1.8)
P 		62.8
(-3)
P 		67
(-2.8)
P 		87.5
(-1.6)
P 		109
avr 131.4
(3) 		109.2
(1.2) 		75.9
(-1.6) 		58.4
(-3) 		83.7
(-0.9) 		69.4
(-2.1) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175439_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22024
Sequence Type Exemplar sequence
Representative Public ID AV178927 NCBI
Target Description AV178927_rc /REP_DB=TREMBL Accession /GB=AV178927 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk585b11 : 3prime end, single read.
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_071595(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071595 NCBI Caenorhabditis elegans T24A6.20 (T24A6.20) mRNA, complete cds. 11/11 None
SNAP00000027430 ENSEMBL cdna:SNAP chromosome:CEL140:V:3553043:3554354:1 11/11 None
GENEFINDER00000027441 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3553043:3554354:1 11/11 None
T24A6.20 ENSEMBL cdna:known chromosome:CEL140:V:3552975:3554354:1 gene:T24A6.20 11/11 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
chrV:3553988-3554317(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T24A6.20
Entrez Gene 178776 Entrez gene
SwissProt Q965J1 EMBL-EBI
WormBase CE31069 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK73896 Hypothetical protein T24A6.20 [Caenorhabditis elegans] ref|NP_503996.2| T24A6.20 [Caenorhabditis elegans] 1.0E-179
blast AAK73896 Hypothetical protein T24A6.20 [Caenorhabditis elegans] ref|NP_503996.2| T24A6.20 [Caenorhabditis elegans] 1.0E-178
blast CAE58208 Hypothetical protein CBG01303 [Caenorhabditis briggsae] 1.0E-152
blast CAE58208 Hypothetical protein CBG01303 [Caenorhabditis briggsae] 1.0E-151
blast AAB52316 Hypothetical protein C03G6.17 [Caenorhabditis elegans] ref|NP_504888.2| C03G6.17 [Caenorhabditis elegans] 1.0E-142
Sequence
Target Sequence 
>C. ELEGANS:175439_AT
gcaaccatccgacttgtcactaaaaacaagctgagccctgctccattctacgcagatact
cctgaagccgccgaggtcttgctggctgatcttttgaagagtattcccaactgggagaag
cactctagcatggggttcctgtaccccgaaattaataaggacccgcttgagcttctggaa
aaattcgccaaaagcaaggaacttgtatcaactagccgctttgtccgaagtcaattcacc
aa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAACCATCCGACTTGTCACTAAAA 687 319 21 Antisense
AAAACAAGCTGAGCCCTGCTCCATT 177 131 43 Antisense
CCCTGCTCCATTCTACGCAGATACT 258 259 56 Antisense
TCTACGCAGATACTCCTGAAGCCGC 591 613 67 Antisense
AGGTCTTGCTGGCTGATCTTTTGAA 541 57 94 Antisense
GAGAAGCACTCTAGCATGGGGTTCC 192 391 135 Antisense
GCATGGGGTTCCTGTACCCCGAAAT 519 239 148 Antisense
TAATAAGGACCCGCTTGAGCTTCTG 349 633 173 Antisense
GGAACTTGTATCAACTAGCCGCTTT 231 529 218 Antisense
ATCAACTAGCCGCTTTGTCCGAAGT 649 25 227 Antisense
GCTTTGTCCGAAGTCAATTCACCAA 145 301 238 Antisense
Sequence Source Affymetrix Proprietary Database