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[188953_s_at] Alpha amylase

Description C38C6.2 /REP_DB=WormBase Gene ID /WP=CE15694 /TR=O45298 /GB=CAB07562.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Alpha amylase
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 60      6grp_total > 05      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 526
1 2 3 4 range
A 597.1
(2.6)
P 		625.1
(3)
P 		477.8
(1.1)
P 		154.3
(-3)
P 		471
B 666.5
(3)
P 		552.7
(1.7)
P 		390.2
(-0.2)
P 		140.9
(-3)
P 		526
C 587.2
(2.7)
P 		607.6
(3)
P 		442.8
(0.8)
P 		151
(-3)
P 		457
avr 616.9
(3) 		595.1
(2.7) 		436.9
(0.7) 		148.7
(-3) 		468

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 416
1 2 3 4 5 6 range
A 589.7
(3)
P 		515.6
(1.7)
P 		290.9
(-2.3)
P 		283.4
(-2.4)
P 		302.7
(-2)
P 		248.3
(-3)
P 		341
B 530.4
(3)
P 		409.7
(0.7)
P 		364.8
(-0.1)
P 		270.4
(-1.9)
P 		308.7
(-1.2)
P 		210.9
(-3)
P 		320
C 572.2
(3)
P 		469.4
(1.5)
P 		445.9
(1.1)
P 		278.3
(-1.4)
P 		340.8
(-0.5)
P 		174
(-3)
P 		398
avr 564.1
(3) 		464.9
(1.3) 		367.2
(-0.3) 		277.4
(-1.9) 		317.4
(-1.2) 		211.1
(-3) 		353
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 195
1 2 3 4 range
A 217.4
(3)
P 		135.7
(0.5)
P 		124.9
(0.2)
P 		22.6
(-3)
P 		195
B 212.5
(3)
P 		136.5
(0.5)
P 		90.4
(-1)
P 		30
(-3)
P 		183
C 194.4
(3)
P 		174.7
(2.3)
P 		154.3
(1.6)
P 		25.5
(-3)
P 		169
avr 208.1
(3) 		149
(1.1) 		123.2
(0.2) 		26
(-3) 		182

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 156
1 2 3 4 5 6 range
A 108.7
(-0.6)
P 		183.4
(3)
P 		63.3
(-2.9)
P 		71.9
(-2.4)
P 		91.4
(-1.5)
P 		60.4
(-3)
P 		123
B 184.5
(3)
P 		136.4
(0.4)
P 		88.6
(-2.1)
P 		71.6
(-3)
P 		125.4
(-0.1)
P 		78.6
(-2.6)
P 		113
C 212.1
(3)
P 		143.2
(0.4)
P 		113.5
(-0.8)
P 		56
(-3)
P 		110.3
(-0.9)
P 		58.2
(-2.9)
P 		156
avr 168.4
(3) 		154.3
(2.2) 		88.5
(-1.7) 		66.5
(-3) 		109
(-0.5) 		65.7
(-3) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188953_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3449
Sequence Type Exemplar sequence
Representative Public ID C38C6.2 NCBI
Target Description C38C6.2 /REP_DB=WormBase Gene ID /WP=CE15694 /TR=O45298 /GB=CAB07562.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Alpha amylase
Cluster Evidence This cluster is supported by a 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_064642(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064642 NCBI Caenorhabditis elegans Amino acid Transporter Glycoprotein subunit family member (atg-2) (atg-2) mRNA, complete cds. 11/11 None
SNAP00000016882 ENSEMBL cdna:SNAP chromosome:CEL140:II:14640266:14643965:-1 11/11 None
GENEFINDER00000016885 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14640266:14643965:-1 11/11 None
C38C6.2 ENSEMBL cdna:known chromosome:CEL140:II:14640011:14643976:-1 gene:C38C6.2 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:14640262-14643962(-) 100.0 100.0
Public Domain and Genome References
Gene Title Alpha amylase
Gene Symbol atg-2
Ensembl C38C6.2
Entrez Gene 175125 Entrez gene
SwissProt O45298 EMBL-EBI
WormBase CE31162 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1582554_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 cfa
CANINE_2:CFA.3561.1.S1_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 cfa
CANINE_2:CFAAFFX.4678.1.S1_S_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 cfa
DROSOPHILA_2:1639262_AT dm
DROSGENOME1:146809_AT dm
CHICKEN:GGAAFFX.6267.1.S1_AT similar to Neutral and basic amino acid transport protein rBAT (B(0,+)-type amino acid transport protein) (NAA-TR) (D2) gga
HG-U133_PLUS_2:205799_S_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-U133A:205799_S_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-FOCUS:205799_S_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-U133A_2:205799_S_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
U133_X3P:G306441_3P_A_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
U133_X3P:HS.211066.0.A1_3P_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-U133_PLUS_2:239667_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-U133B:239667_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
HG-U95D:70710_I_AT solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1 hs
MG-U74AV2:93304_AT solute carrier family 3, member 1 mm
MG-U74CV2:165780_S_AT solute carrier family 3, member 1 mm
MOE430A:1448741_AT solute carrier family 3, member 1 mm
MOUSE430A_2:1448741_AT solute carrier family 3, member 1 mm
MOUSE430_2:1448741_AT solute carrier family 3, member 1 mm
MG-U74BV2:114941_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MOUSE430_2:1442060_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MOE430B:1442060_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MU19KSUBB:TC28329_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MU19KSUBB:TC28329_G_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MU19KSUBB:TC32248_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MU19KSUBB:TC32248_G_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
MU19KSUBC:TC37972_AT Solute carrier family 3, member 1, mRNA (cDNA clone MGC:18365 IMAGE:4222972) mm
RG-U34A:M80804_S_AT solute carrier family 3, member 1 rn
RAE230A:1368440_AT solute carrier family 3, member 1 rn
RAT230_2:1368440_AT solute carrier family 3, member 1 rn
RG-U34B:RC_AA946224_AT Solute carrier family 3, member 1 rn
RG-U34C:RC_AI136350_AT Solute carrier family 3, member 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
5975 carbohydrate metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4556 alpha-amylase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07562 Hypothetical protein C38C6.2 [Caenorhabditis elegans] ref|NP_497043.2| Amino acid Transporter Glycoprotein subunit family member (atg-2) [Caenorhabditis elegans] 0.0
blast CAE65904 Hypothetical protein CBG11071 [Caenorhabditis briggsae] 0.0
blast CAE57485 Hypothetical protein CBG00454 [Caenorhabditis briggsae] 1.0E-78
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497043.2 1 99-121
C38C6.2 1 99-121
SNAP00000016882 1 99-121
GENEFINDER00000016885 1 99-121
Sequence
Target Sequence 
>C. ELEGANS:188953_S_AT
acatgcacaactcctgatggttctccaaatgattctacctggaactaacaatatctacta
cggtgaggaaatcggcatgcgaaatctggcgaatgactccagagtcccaccacagaaggg
tgcgatgcaatgggatgactcgttgaacggaggattcacatcagccatcagtccgccggt
tccgtcaaatatcgacgtggcgaatattaactggaaacggcaatacgctgagcctcagtc
aacattgaagattttcgcgaaactggcgaaattgagacagagagaagatgcactgatgac
tggaaccacgctgattgggcgactagttgatggagcattcacgattacgagattcaataa
ttttgaaaatagaactactggaaatatctacgtagccgctctcaactttgccgagcatcc
agtaaaacttccactgacagacttgccaagcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACATGCACAACTCCTGATGGTTCTC 424 107 1179 Antisense
GATGGTTCTCCAAATGATTCTACCT 653 407 1194 Antisense
ATCGGCATGCGAAATCTGGCGAATG 66 35 1249 Antisense
TGGCGAATGACTCCAGAGTCCCACC 355 545 1265 Antisense
GAGTCCCACCACAGAAGGGTGCGAT 118 399 1280 Antisense
GAACGGAGGATTCACATCAGCCATC 311 349 1323 Antisense
AACGGCAATACGCTGAGCCTCAGTC 270 143 1394 Antisense
GATGCACTGATGACTGGAACCACGC 675 411 1465 Antisense
GGAACCACGCTGATTGGGCGACTAG 205 531 1480 Antisense
TCTCAACTTTGCCGAGCATCCAGTA 480 611 1578 Antisense
TTCCACTGACAGACTTGCCAAGCAA 337 701 1607 Antisense
Sequence Source Affymetrix Proprietary Database