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[188536_s_at]

Description C32D5.9 /REP_DB=WormBase Gene ID /WP=CE01849 /GEN=lgg-1 /TR=SW:Q09490 /GB=AAC46797.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 71      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 29      6grp_total > 71      4grp_total > 03      6grp_highest_sub > 04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15667
1 2 3 4 range
A 10955.5
(-2.3)
P 		9214.9
(-3)
P 		9319.2
(-3)
P 		24575.8
(3)
P 		15361
B 10881.4
(-2.5)
P 		11776.2
(-2)
P 		10012.5
(-3)
P 		20229.3
(3)
P 		10217
C 12003.5
(-1.5)
P 		11366.3
(-1.8)
P 		8908.5
(-3)
P 		21429.1
(3)
P 		12521
avr 11280.1
(-2.1) 		10785.8
(-2.3) 		9413.4
(-3) 		22078.1
(3) 		12665

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6248
1 2 3 4 5 6 range
A 11335.9
(-3)
P 		12842.6
(-1.2)
P 		12504.6
(-1.6)
P 		16416.1
(3)
P 		12836.6
(-1.2)
P 		13460.8
(-0.5)
P 		5080
B 10702.9
(-2)
P 		12343.5
(1)
P 		13330.8
(2.9)
P 		13397.5
(3)
P 		12594
(1.5)
P 		10168.6
(-3)
P 		3229
C 13242.6
(-0.1)
P 		11880.3
(-3)
P 		13595.5
(0.6)
P 		14571
(2.6)
P 		14744
(3)
P 		12062.9
(-2.6)
P 		2864
avr 11760.5
(-3) 		12355.5
(-1.8) 		13143.6
(-0.3) 		14794.9
(3) 		13391.5
(0.2) 		11897.4
(-2.7) 		3034
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2311
1 2 3 4 range
A 3988.9
(3)
P 		2000.3
(-3)
P 		2436.2
(-1.7)
P 		3597.4
(1.8)
P 		1989
B 3470
(0.5)
P 		2908.4
(-1.2)
P 		2320.1
(-3)
P 		4310.9
(3)
P 		1991
C 3973.5
(3)
P 		3267.9
(-1.9)
P 		3104.9
(-3)
P 		3613.3
(0.5)
P 		869
avr 3810.8
(2.9) 		2725.5
(-2.5) 		2620.4
(-3) 		3840.5
(3) 		1220

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3027
1 2 3 4 5 6 range
A 2089.7
(-3)
P 		4567.5
(3)
P 		2723.2
(-1.5)
P 		4163.5
(2)
P 		3873.5
(1.3)
P 		3277.3
(-0.1)
P 		2478
B 3724.1
(-1.4)
P 		4108.6
(-0.2)
P 		3237.1
(-3)
P 		3548.5
(-2)
P 		5116.8
(3)
P 		3791.8
(-1.2)
P 		1880
C 4908.5
(3)
P 		3625
(-0.9)
P 		3460.3
(-1.4)
P 		2930.2
(-3)
P 		4770.9
(2.6)
P 		4038.2
(0.4)
P 		1978
avr 3574.1
(-1.2) 		4100.4
(1) 		3140.2
(-3) 		3547.4
(-1.3) 		4587.1
(3) 		3702.4
(-0.7) 		1447
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188536_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5455
Sequence Type Exemplar sequence
Representative Public ID C32D5.9 NCBI
Target Description C32D5.9 /REP_DB=WormBase Gene ID /WP=CE01849 /GEN=lgg-1 /TR=SW:Q09490 /GB=AAC46797.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062876(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062876 NCBI Caenorhabditis elegans LC3, GABARAP and GATE-16 family member (lgg-1) (lgg-1) mRNA, complete cds. 11/11 None
SNAP00000026832 ENSEMBL cdna:SNAP chromosome:CEL140:II:6347210:6347633:-1 11/11 None
GENEFINDER00000026836 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6347210:6347633:-1 11/11 None
C32D5.9.1 ENSEMBL cdna:known chromosome:CEL140:II:6346909:6347666:-1 gene:C32D5.9 11/11 None
C32D5.9.2 ENSEMBL cdna:known chromosome:CEL140:II:6346910:6347668:-1 gene:C32D5.9 11/11 None
C32D5.9.3 ENSEMBL cdna:known chromosome:CEL140:II:6346938:6347668:-1 gene:C32D5.9 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
chrII:6347206-6347630(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lgg-1
Ensembl C32D5.9
Entrez Gene 174050 Entrez gene
SwissProt Q09490 EMBL-EBI
WormBase CE01849 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:15004_AT autophagy 8d (APG8d) at
ATH1-121501:265510_AT autophagy 8d (APG8d) at
CANINE:1583207_AT similar to gamma-aminobutyric acid receptor associated protein cfa
CANINE_2:CFA.1238.4.A1_AT similar to gamma-aminobutyric acid receptor associated protein cfa
CANINE_2:CFAAFFX.24704.1.S1_S_AT similar to gamma-aminobutyric acid receptor associated protein cfa
DROSOPHILA_2:1639467_AT Autophagy-specific gene 8a dm
DROSGENOME1:153560_AT Autophagy-specific gene 8a dm
HG-U95AV2:37298_AT GABA(A) receptor-associated protein hs
HG-U133_PLUS_2:200645_AT GABA(A) receptor-associated protein hs
HG-U133A:200645_AT GABA(A) receptor-associated protein hs
HG-FOCUS:200645_AT GABA(A) receptor-associated protein hs
HG-U133A_2:200645_AT GABA(A) receptor-associated protein hs
HU35KSUBA:W27617_AT GABA(A) receptor-associated protein hs
U133_X3P:G6005763_3P_X_AT GABA(A) receptor-associated protein hs
U133_X3P:G6005763_3P_AT GABA(A) receptor-associated protein hs
MU11KSUBA:AA106970_S_AT gamma-aminobutyric acid receptor associated protein mm
MG-U74AV2:96869_AT gamma-aminobutyric acid receptor associated protein mm
MG-U74CV2:169041_I_AT gamma-aminobutyric acid receptor associated protein mm
MOE430A:1416937_AT gamma-aminobutyric acid receptor associated protein mm
MOUSE430A_2:1416937_AT gamma-aminobutyric acid receptor associated protein mm
MOUSE430_2:1416937_AT gamma-aminobutyric acid receptor associated protein mm
RG-U34A:RC_AA892649_AT gamma-aminobutyric acid receptor associated protein rn
RAE230A:1370804_AT gamma-aminobutyric acid receptor associated protein rn
RAT230_2:1370804_AT gamma-aminobutyric acid receptor associated protein rn
YEAST_2:1772778_AT Protein required for autophagy; modified by the serial action of Atg4p, Atg7p, and Atg3p, and conjugated at the C terminus with phosphatidylethanolamine, to become the form essential for generation of autophagosomes Sc
Protein Similarities
Method ID Description E-Value
blast AAC46797 Lc3, gabarap and gate-16 family protein 1 [Caenorhabditis elegans] ref|NP_495277.1| LC3, GABARAP and GATE-16 family member (lgg-1) [Caenorhabditis elegans] gb|AAG49393.1| GABA A receptor-associated protein [Caenorhabditis elegans] sp|Q09490|LGG1_CAEEL Protein lgg-1 4.0E-67
blast CAE59298 Hypothetical protein CBG02633 [Caenorhabditis briggsae] 2.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR004241 EMBL-EBI Light chain 3 (LC3) 7.8E-83
Sequence
Target Sequence 
>C. ELEGANS:188536_S_AT
aactttgagaagcgtcgtgccgaaggagacaagatccgcagaaagtacccagaccgtatt
ccagtgattgttgagaaagcaccaaagtcaaagctccatgacttggataagaagaagtac
ttggtcccatccgatcttactgttggacagttctacttcctcatcagaaaacgcatccaa
cttcgtccagaagatgctctgttcttctttgtcaacaatgtcattccacaaaccatgacc
acaatgggacaactctaccaggaccatcacgaggaagacttgttcctttacatcgcctac
agtgacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTTTGAGAAGCGTCGTGCCGAAG 489 139 40 Antisense
AGATCCGCAGAAAGTACCCAGACCG 482 67 71 Antisense
ACCCAGACCGTATTCCAGTGATTGT 52 91 86 Antisense
GAAGAAGTACTTGGTCCCATCCGAT 29 337 150 Antisense
TCCCATCCGATCTTACTGTTGGACA 703 597 164 Antisense
GTTCTACTTCCTCATCAGAAAACGC 349 443 189 Antisense
CAGAAAACGCATCCAACTTCGTCCA 679 203 204 Antisense
TGCTCTGTTCTTCTTTGTCAACAAT 16 581 234 Antisense
CAACTCTACCAGGACCATCACGAGG 310 189 289 Antisense
GGAAGACTTGTTCCTTTACATCGCC 354 531 312 Antisense
TTCCTTTACATCGCCTACAGTGACG 699 681 322 Antisense
Sequence Source Affymetrix Proprietary Database