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[186588_at]

Description Y55F3AM.4 /REP_DB=WormBase Gene ID /WP=CE25486 /TR=Q9N369 /GB=AAF60797.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 22      4grp_high_8_8 > 15      6grp_highest_nonorm > 95      6grp_total > 96      4grp_total > 0      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 772
1 2 3 4 range
A 705.4
(-3)
P 		738.3
(-2.6)
P 		733
(-2.7)
P 		1206.5
(3)
P 		501
B 761.3
(-2.5)
P 		705.3
(-3)
P 		876.3
(-1.5)
P 		1412.5
(3)
P 		707
C 749.2
(-1.4)
P 		641
(-3)
P 		785.9
(-0.8)
P 		1043.2
(3)
P 		402
avr 738.6
(-2.5) 		694.9
(-3) 		798.4
(-1.8) 		1220.7
(3) 		526

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 722
1 2 3 4 5 6 range
A 426.6
(-3)
P 		581
(-1.4)
P 		527.4
(-2)
P 		751.5
(0.3)
P 		890.1
(1.7)
P 		1022.5
(3)
P 		596
B 456.5
(-3)
P 		534.5
(-2.3)
P 		649.1
(-1.3)
P 		843.8
(0.4)
P 		1013.8
(1.8)
P 		1148.8
(3)
P 		692
C 716.6
(-1)
P 		519.5
(-3)
P 		631.5
(-1.8)
P 		635.7
(-1.8)
P 		1098.3
(3)
P 		1042.7
(2.4)
P 		579
avr 533.2
(-3) 		545
(-2.9) 		602.7
(-2.2) 		743.7
(-0.7) 		1000.7
(2.2) 		1071.3
(3) 		538
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 256.8
(3)
P 		160.3
(-3)
P 		191.6
(-1.1)
P 		176.6
(-2)
P 		97
B 242.8
(0.2)
P 		174.2
(-3)
P 		203.1
(-1.6)
P 		301
(3)
P 		127
C 248
(1.4)
P 		184.3
(-2.5)
P 		273.9
(3)
P 		175.9
(-3)
P 		98
avr 249.2
(3) 		172.9
(-3) 		222.9
(0.9) 		217.8
(0.5) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 350
1 2 3 4 5 6 range
A 78.6
(-3)
P 		206.6
(1)
P 		114.9
(-1.9)
P 		190.6
(0.5)
P 		268.6
(3)
P 		249
(2.4)
P 		190
B 158.8
(-3)
P 		177.9
(-2.6)
P 		157.6
(-3)
P 		223.5
(-1.5)
P 		411.9
(2.6)
P 		428.4
(3)
P 		271
C 265.6
(0.6)
P 		158.5
(-2.2)
P 		160.7
(-2.1)
P 		127.8
(-3)
P 		355.4
(3)
P 		349.1
(2.8)
P 		228
avr 167.7
(-2.3) 		181
(-1.9) 		144.4
(-3) 		180.6
(-1.9) 		345.3
(3) 		342.2
(2.9) 		201
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186588_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10804
Sequence Type Exemplar sequence
Representative Public ID Y55F3AM.4 NCBI
Target Description Y55F3AM.4 /REP_DB=WormBase Gene ID /WP=CE25486 /TR=Q9N369 /GB=AAF60797.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_067623(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067623 NCBI Caenorhabditis elegans Y55F3AM.4 (Y55F3AM.4) mRNA, complete cds. 11/11 None
SNAP00000030047 ENSEMBL cdna:SNAP chromosome:CEL140:IV:988402:1012431:1 11/11 None
GENEFINDER00000030072 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1010506:1012431:1 11/11 None
Y55F3AM.4 ENSEMBL cdna:known chromosome:CEL140:IV:1010492:1012444:1 gene:Y55F3AM.4 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
chrIV:1010517-1012437(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3AM.4
Entrez Gene 176921 Entrez gene
SwissProt Q9N369 EMBL-EBI
WormBase CE25486 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247542_AT autophagy 3 (APG3) at
CANINE:1588852_AT similar to Apg3p cfa
CANINE_2:CFA.10900.1.A1_AT similar to Apg3p cfa
CANINE_2:CFA.10900.1.A1_S_AT similar to Apg3p cfa
CANINE_2:CFA.19977.1.S1_S_AT similar to Apg3p cfa
DROSOPHILA_2:1635143_AT Saccharomyces cerevisiae UAS construct a of Juhasz dm
DROSGENOME1:153099_AT Saccharomyces cerevisiae UAS construct a of Juhasz dm
CHICKEN:GGA.12109.1.S1_AT ATG3 autophagy related 3 homolog (S. cerevisiae) gga
HG-U133_PLUS_2:221492_S_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-FOCUS:221492_S_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U133A:221492_S_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U133A_2:221492_S_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HU35KSUBA:RC_AA449700_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U133A:220237_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:220237_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U133A_2:220237_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
U133_X3P:G11968042_3P_X_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
U133_X3P:G11968042_3P_A_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
U133_X3P:G11493699_3P_A_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
HG-U95C:65839_AT ATG3 autophagy related 3 homolog (S. cerevisiae) hs
MOUSE430_2:1418179_AT autophagy-related 3 (yeast) mm
MOE430A:1418179_AT autophagy-related 3 (yeast) mm
MOUSE430A_2:1418179_AT autophagy-related 3 (yeast) mm
MG-U74BV2:113228_AT autophagy-related 3 (yeast) mm
MOE430A:1448993_AT autophagy-related 3 (yeast) mm
MOUSE430A_2:1448993_AT autophagy-related 3 (yeast) mm
MOUSE430_2:1448993_AT autophagy-related 3 (yeast) mm
MU19KSUBB:TC33281_AT Autophagy-related 3-like (yeast), mRNA (cDNA clone MGC:18909 IMAGE:4241199) mm
MU19KSUBC:TC37957_AT Autophagy-related 3-like (yeast), mRNA (cDNA clone MGC:18909 IMAGE:4241199) mm
RG-U34C:RC_AI179248_AT APG3 autophagy 3-like (S. cerevisiae) rn
RAE230A:1398805_AT APG3 autophagy 3-like (S. cerevisiae) rn
RAT230_2:1398805_AT APG3 autophagy 3-like (S. cerevisiae) rn
Protein Similarities
Method ID Description E-Value
blast AAF60798 Hypothetical protein Y55F3AM.6a [Caenorhabditis elegans] ref|NP_001023510.1| Y55F3AM.6a [Caenorhabditis elegans] 0.0
blast AAP13746 Hypothetical protein Y55F3AM.6b [Caenorhabditis elegans] ref|NP_001023511.1| Y55F3AM.6b [Caenorhabditis elegans] 1.0E-164
blast AAF60797 Hypothetical protein Y55F3AM.4 [Caenorhabditis elegans] ref|NP_500024.1| Y55F3AM.4 [Caenorhabditis elegans] 1.0E-146
blast CAE68280 Hypothetical protein CBG13964 [Caenorhabditis briggsae] 1.0E-123
blast CAE68284 Hypothetical protein CBG13968 [Caenorhabditis briggsae] 1.0E-110
blast NP_080678 autophagy Apg3p/Aut1p-like [Mus musculus] gb|AAH10809.1| Autophagy Apg3p/Aut1p-like [Mus musculus] dbj|BAE29952.1| unnamed protein product [Mus musculus] dbj|BAE34917.1| unnamed protein product [Mus musculus] dbj|BAB23918.1| unnamed protein product [Mus musculus] dbj|BAC37437.1| unnamed protein product [Mus musculus] dbj|BAB27600.1| unnamed protein product [Mus musculus] dbj|BAC57452.1| Apg3p [Mus musculus] sp|Q9CPX6|APG3L_MOUSE Autophagy protein 3-like (APG3-like) 3.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR007135 EMBL-EBI Autophagocytosis associated protein, C-terminal 1.0E-74
Pfam IPR007134 EMBL-EBI Autophagocytosis associated protein, N-terminal 4.9E-103
Pfam IPR007135 EMBL-EBI Autophagocytosis associated protein, C-terminal 1.0E-74
Pfam IPR001841 EMBL-EBI Zn-finger, RING 2.8E-6
Pfam IPR007135 EMBL-EBI Autophagocytosis associated protein, C-terminal 1.0E-74
Pfam IPR007134 EMBL-EBI Autophagocytosis associated protein, N-terminal 4.9E-103
Sequence
Target Sequence 
>C. ELEGANS:186588_AT
ccagaggactctgacgacgacgacgaggagccgctggatctggatgagctgggcctcgac
gacgacgaagaggatcccaatcgatttgtagttgagaagaagccgctggccgccggcaac
gataattcgggagaagtcgaaaaagttcggacctatgatttgcacatttgctatgacaag
tattatcaggttccccggctcttcctgatgggctacgacgagaaccggcgcccgctgacc
gtcgagcaaacttatgaggacttttccgccgatcattccaacaaaacgatcactgttgaa
gctcatccgtctgtcgatctcacaatgcccaccgttcacccgtgcaaacacgccgaaatg
atgaagcggcttatcaatcaatatgcagagtctggaaaggtgctcggtgtgcacgaatat
ctgtttttattcttgaaattcgtgcaggcggtcattccgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAGAGGACTCTGACGACGACGACG 392 271 433 Antisense
GAGCCGCTGGATCTGGATGAGCTGG 657 385 460 Antisense
AGTTGAGAAGAAGCCGCTGGCCGCC 641 63 522 Antisense
AAAGTTCGGACCTATGATTTGCACA 548 121 574 Antisense
ACAAGTATTATCAGGTTCCCCGGCT 491 1 608 Antisense
TGGGCTACGACGAGAACCGGCGCCC 643 549 641 Antisense
CCGCTGACCGTCGAGCAAACTTATG 14 261 664 Antisense
ACTTATGAGGACTTTTCCGCCGATC 421 103 682 Antisense
TCCGCCGATCATTCCAACAAAACGA 51 597 697 Antisense
TTCACCCGTGCAAACACGCCGAAAT 344 685 767 Antisense
AATTCGTGCAGGCGGTCATTCCGAC 557 177 869 Antisense
Sequence Source Affymetrix Proprietary Database