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[173205_s_at] Alpha amylase

Description AV198991_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV198991 /DEF=Caenorhabditis elegans cDNA clone:yk407g12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 64      4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_highest_nonorm > 73      6grp_total > 44      4grp_total > 47      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 394
1 2 3 4 range
A 584.1
(3)
P 		313.8
(-3)
P 		428.9
(-0.4)
P 		387.4
(-1.4)
P 		270
B 708.1
(3)
P 		451.3
(-2.6)
P 		432.3
(-3)
P 		471.7
(-2.1)
P 		276
C 562.6
(3)
P 		505.6
(0.8)
P 		415.5
(-2.6)
P 		403.6
(-3)
P 		159
avr 618.3
(3) 		423.6
(-2.9) 		425.6
(-2.9) 		420.9
(-3) 		197

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 511
1 2 3 4 5 6 range
A 641.3
(2)
P 		527.6
(-0.4)
P 		611.1
(1.4)
P 		526.5
(-0.5)
P 		409.4
(-3)
P 		685
(3)
P 		276
B 602.4
(0.3)
P 		516.8
(-0.7)
P 		833.1
(3)
P 		448.1
(-1.5)
P 		321.8
(-3)
P 		560.6
(-0.2)
P 		511
C 571.5
(0.1)
P 		490.1
(-1.2)
P 		747.9
(3)
P 		542.8
(-0.3)
P 		379.7
(-3)
P 		566.5
(0)
P 		368
avr 605.1
(0.9) 		511.5
(-0.6) 		730.7
(3) 		505.8
(-0.7) 		370.3
(-3) 		604
(0.9) 		360
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 169
1 2 3 4 range
A 212.7
(3)
P 		68.1
(-2.6)
P 		112.1
(-0.9)
P 		56.7
(-3)
P 		156
B 225.8
(3)
P 		111.5
(-2.5)
P 		100.2
(-3)
P 		100.5
(-3)
P 		126
C 186.2
(3)
P 		145.3
(0.9)
P 		144.8
(0.9)
P 		68.1
(-3)
P 		118
avr 208.2
(3) 		108.3
(-1.5) 		119
(-1) 		75.1
(-3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 103
1 2 3 4 5 6 range
A 118.2
(-3)
P 		187.6
(3)
P 		133.1
(-1.7)
P 		133.5
(-1.7)
P 		123.5
(-2.5)
P 		166.8
(1.2)
P 		69
B 209.6
(3)
P 		172
(0.5)
P 		202.3
(2.5)
P 		118.7
(-3)
P 		130.8
(-2.2)
P 		209
(3)
P 		91
C 211.8
(3)
P 		149.5
(-0.6)
P 		190.4
(1.7)
P 		109.2
(-3)
P 		122.9
(-2.2)
P 		189.6
(1.7)
P 		103
avr 179.9
(2.2) 		169.7
(1.3) 		175.3
(1.8) 		120.5
(-3) 		125.7
(-2.5) 		188.5
(3) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173205_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26937
Sequence Type Exemplar sequence
Representative Public ID AV198991 NCBI
Target Description AV198991_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV198991 /DEF=Caenorhabditis elegans cDNA clone:yk407g12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_064583(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064583 NCBI Caenorhabditis elegans R06A4.8 (R06A4.8) mRNA, complete cds. 11/11 A 
SNAP00000043976 ENSEMBL cdna:SNAP chromosome:CEL140:II:14350767:14357420:-1 11/11 None
GENEFINDER00000043991 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14350794:14357420:-1 11/11 None
R06A4.8 ENSEMBL cdna:known chromosome:CEL140:II:14350628:14357420:-1 gene:R06A4.8 11/11 A 
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:14350703-14350970(-) 88.0 88.0
Public Domain and Genome References
Gene Title Alpha amylase
Ensembl R06A4.8
Entrez Gene 175091 Entrez gene
SwissProt O62334 EMBL-EBI
WormBase CE18115 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.18006.1.S1_AT similar to amylo-1,6-glucosidase, 4-alpha-glucanotransferase isoform 1 cfa
CANINE_2:CFA.18682.1.S1_S_AT similar to amylo-1,6-glucosidase, 4-alpha-glucanotransferase isoform 1 cfa
CANINE_2:CFAAFFX.30676.1.S1_S_AT similar to amylo-1,6-glucosidase, 4-alpha-glucanotransferase isoform 1 cfa
DROSOPHILA_2:1637538_S_AT dm
DROSGENOME1:154730_AT dm
CHICKEN:GGA.10021.1.S1_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) gga
CHICKEN:GGA.10021.2.S1_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) gga
CHICKEN:GGAAFFX.26492.1.S1_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) gga
HG-U95AV2:38253_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HG-U133_PLUS_2:203566_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HG-U133A:203566_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HG-FOCUS:203566_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HG-U133A_2:203566_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HU35KSUBD:RC_AA449229_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HUGENEFL:U84011_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
U133_X3P:G4557282_3P_A_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
HG-U95AV2:38252_S_AT amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) hs
MU11KSUBA:C77182_RC_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MU11KSUBA:C77182_RC_G_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MG-U74AV2:94790_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MG-U74BV2:117213_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MG-U74CV2:129153_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOE430A:1431032_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOUSE430A_2:1431032_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOUSE430_2:1431032_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOE430A:1431033_X_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOUSE430A_2:1431033_X_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOUSE430_2:1431033_X_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOE430B:1429083_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MOUSE430_2:1429083_AT amylo-1,6-glucosidase, 4-alpha-glucanotransferase mm
MU19KSUBC:TC35417_AT PREDICTED: amylo-1,6-glucosidase, 4-alpha-glucanotransferase [Mus musculus], mRNA sequence mm
RAE230A:1372736_AT Amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) (predicted) rn
RAT230_2:1372736_AT Amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) (predicted) rn
RAE230B:1395414_AT Amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) (predicted) rn
RAT230_2:1395414_AT Amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) (predicted) rn
RG-U34C:RC_AI170763_AT Amylo-1, 6-glucosidase, 4-alpha-glucanotransferase (glycogen debranching enzyme, glycogen storage disease type III) (predicted) rn
YEAST_2:1769968_AT Glycogen debranching enzyme containing glucanotranferase and alpha-1,6-amyloglucosidase activities, required for glycogen degradation Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
5978 glycogen biosynthesis inferred from electronic annotation QuickGO AmiGO
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4134 4-alpha-glucanotransferase activity inferred from electronic annotation QuickGO AmiGO
4135 amylo-alpha-1,6-glucosidase activity inferred from electronic annotation QuickGO AmiGO
4219 pyroglutamyl-peptidase I activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05588 Hypothetical protein R06A4.8 [Caenorhabditis elegans] ref|NP_496984.1| R06A4.8 [Caenorhabditis elegans] 0.0
blast CAE65931 Hypothetical protein CBG11104 [Caenorhabditis briggsae] 0.0
blast XP_524777 PREDICTED: hypothetical protein XP_524777 [Pan troglodytes] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010401 EMBL-EBI Amylo-alpha-1,6-glucosidase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173205_S_AT
ggaggatccgaaaagcagtatgcgatccggcaagtccaggagcgactcggcaatgcttac
aagcacatcatttcatcaccatggaggtcactaccggaactgacgaatgctgatggagaa
tactgtatgcagagttgtgctgcccaggcgtggtccgtcggttgcctgattgaagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGGATCCGAAAAGCAGTATGCGA 70 517 13 Antisense
AAGCAGTATGCGATCCGGCAAGTCC 261 151 25 Antisense
GATCCGGCAAGTCCAGGAGCGACTC 266 417 36 Antisense
TCCAGGAGCGACTCGGCAATGCTTA 258 589 47 Antisense
GCGACTCGGCAATGCTTACAAGCAC 444 289 54 Antisense
GCTTACAAGCACATCATTTCATCAC 275 305 67 Antisense
GCACATCATTTCATCACCATGGAGG 437 317 75 Antisense
ACCATGGAGGTCACTACCGGAACTG 515 81 90 Antisense
AATGCTGATGGAGAATACTGTATGC 389 165 118 Antisense
GTATGCAGAGTTGTGCTGCCCAGGC 553 453 137 Antisense
GTCCGTCGGTTGCCTGATTGAAGCA 249 477 165 Antisense
Sequence Source Affymetrix Proprietary Database