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[189918_s_at]

Description C55C2.5 /REP_DB=WormBase Gene ID /WP=CE09028 /CHR=1 /FEA=Sanger Annotation /DEF=amino acid permease (ST.LOUIS) TR:O01831 protein_id:AAB54195.1
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 70      6grp_total > 16      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > Cu      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 520
1 2 3 4 range
A 794.3
(3)
P 		451.3
(-1)
P 		274.7
(-3)
P 		748.7
(2.5)
P 		520
B 713.9
(3)
P 		475.1
(-0.9)
P 		346.4
(-3)
P 		682.2
(2.5)
P 		368
C 745.1
(3)
P 		448.6
(-2.4)
P 		415.2
(-3)
P 		507.4
(-1.3)
P 		330
avr 751.1
(3) 		458.3
(-1.3) 		345.4
(-3) 		646.1
(1.4) 		406

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 440
1 2 3 4 5 6 range
A 597.6
(3)
P 		354.1
(-0.3)
P 		238.7
(-1.9)
P 		157.4
(-3)
P 		216.3
(-2.2)
P 		305.6
(-1)
P 		440
B 587.9
(3)
P 		459.1
(0.7)
P 		281.6
(-2.4)
P 		327.2
(-1.6)
P 		246.1
(-3)
P 		258.2
(-2.8)
P 		342
C 459.2
(3)
P 		374.7
(1.1)
P 		189.6
(-2.9)
P 		185.5
(-3)
P 		228.4
(-2.1)
P 		238.5
(-1.8)
P 		274
avr 548.2
(3) 		396
(0.2) 		236.6
(-2.8) 		223.4
(-3) 		230.3
(-2.9) 		267.4
(-2.2) 		325
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 217
1 2 3 4 range
A 289.2
(3)
P 		98
(-2.3)
P 		71.8
(-3)
P 		109.6
(-2)
P 		217
B 227.7
(3)
P 		117.3
(-1.5)
P 		80.3
(-3)
P 		145.4
(-0.4)
P 		147
C 246.7
(3)
P 		129
(-1.4)
P 		144.7
(-0.8)
P 		85.6
(-3)
P 		161
avr 254.5
(3) 		114.8
(-2.4) 		98.9
(-3) 		113.5
(-2.4) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 167
1 2 3 4 5 6 range
A 110.2
(1.9)
P 		125.9
(3)
P 		52
(-2.2)
P 		39.9
(-3)
P 		65.3
(-1.2)
P 		74.4
(-0.6)
P 		86
B 204.6
(3)
P 		152.8
(0.7)
P 		68.4
(-3)
P 		86.7
(-2.2)
P 		100
(-1.6)
P 		96.3
(-1.8)
P 		136
C 170.2
(3)
P 		114.3
(0.5)
P 		48.3
(-2.5)
P 		37.3
(-3)
P 		73.9
(-1.3)
P 		79.8
(-1.1)
P 		133
avr 161.7
(3) 		131
(1.3) 		56.2
(-2.9) 		54.6
(-3) 		79.7
(-1.6) 		83.5
(-1.4) 		107
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189918_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.207
Sequence Type Exemplar sequence
Representative Public ID C55C2.5 NCBI
Target Description C55C2.5 /REP_DB=WormBase Gene ID /WP=CE09028 /CHR=1 /FEA=Sanger Annotation /DEF=amino acid permease (ST.LOUIS) TR:O01831 protein_id:AAB54195.1
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_182011(11), NM_058601(11), NM_058602(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182011 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 11/11 None
NM_058601 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 11/11 None
NM_058602 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 11/11 None
SNAP00000032495 ENSEMBL cdna:SNAP chromosome:CEL140:I:2568854:2576021:-1 11/11 None
GENEFINDER00000032500 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2571989:2576021:-1 11/11 None
C55C2.5c ENSEMBL cdna:known chromosome:CEL140:I:2571783:2576021:-1 gene:C55C2.5 11/11 None
C55C2.5a ENSEMBL cdna:known chromosome:CEL140:I:2571784:2576007:-1 gene:C55C2.5 11/11 A 
C55C2.5b ENSEMBL cdna:known chromosome:CEL140:I:2571789:2576007:-1 gene:C55C2.5 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
chrI:2571988-2576094(-) 100.0 100.0
Public Domain and Genome References
Ensembl C55C2.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAV58874 Amino acid transporter protein 5, isoform a [Caenorhabditis elegans] ref|NP_491002.2| Amino Acid Transporter family member (aat-5) [Caenorhabditis elegans] 0.0
blast T15226 hypothetical protein C55C2.5 - Caenorhabditis elegans 0.0
blast CAE60537 Hypothetical protein CBG04164 [Caenorhabditis briggsae] 0.0
blast AAV58875 Amino acid transporter protein 5, isoform b [Caenorhabditis elegans] ref|NP_491003.2| Amino Acid Transporter family member (aat-5) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-10
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 7.4E-20
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-10
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-5
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 7.4E-20
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_871811.2 7 7-29,39-61,82-104,126-148,160-182,202-224,237-259
NP_491002.2 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
NP_491003.2 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
C55C2.5c 7 7-29,39-61,82-104,126-148,160-182,202-224,237-259
C55C2.5a 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
C55C2.5b 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
SNAP00000032495 12 12-34,44-66,87-109,131-153,165-187,207-229,242-264,289-311,340-357,362-384,397-419,424-443
GENEFINDER00000032500 12 12-34,44-66,87-109,131-153,165-187,207-229,242-264,289-311,340-357,362-384,397-419,424-443
Sequence
Target Sequence 
>C. ELEGANS:189918_S_AT
ctagcgcagagtgtcctcgcgcttgtgatctcctacatcggggacctcgacaccctcatc
acctacgtgatgttcggcttctgggctcagagaatcttcagtctcgtcgccctcctcatc
atccgccacaatcacattccggtgcatcccgacgcggttcgagttccgcttttttgtatc
tatctgtttttggcgatcaccgtggctcttgtcatcatcccaatcttctatgagttccag
tcaactgcgctggctatcgcgatttgtcttttcggattcgtcttgtactatgtcttcatt
cacaaggcgattttcccaagatggcttgttgctcttaacaaaaaagtaaccttgtggtgt
tgcatattattcgactgcctgccagatgtcaaaggcggtgtccagcttcttgcgtccgac
agttcacaggccttgctttctgagaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTAGCGCAGAGTGTCCTCGCGCTTG 13 225 1114 Antisense
ATCACCTACGTGATGTTCGGCTTCT 344 29 1171 Antisense
GAGTTCCGCTTTTTTGTATCTATCT 482 397 1274 Antisense
CTATCTGTTTTTGGCGATCACCGTG 291 225 1293 Antisense
ATCCCAATCTTCTATGAGTTCCAGT 689 35 1330 Antisense
ACTGCGCTGGCTATCGCGATTTGTC 137 99 1357 Antisense
GCGATTTGTCTTTTCGGATTCGTCT 122 291 1372 Antisense
GGATTCGTCTTGTACTATGTCTTCA 379 509 1387 Antisense
CAAGGCGATTTTCCCAAGATGGCTT 553 161 1416 Antisense
TATTCGACTGCCTGCCAGATGTCAA 147 665 1481 Antisense
TTCACAGGCCTTGCTTTCTGAGAGA 23 687 1536 Antisense
Sequence Source Affymetrix Proprietary Database