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[190092_at] amino acid permease

Description F07C3.7 /REP_DB=WormBase Gene ID /WP=CE07028 /TR=Q19151 /GB=AAG24030.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=amino acid permease
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 15      4grp_high_8_8 > 51      6grp_highest_nonorm > 70      6grp_total > 05      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 23      6grp_high1_sub > De      6grp_cgc_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 278
1 2 3 4 range
A 453.6
(3)
P 		358.7
(0.4)
P 		436.4
(2.5)
P 		234.9
(-3)
A 		219
B 398.6
(2.5)
P 		415.8
(3)
P 		392.1
(2.3)
P 		215.6
(-3)
P 		200
C 493.8
(3)
P 		473.4
(2.5)
P 		400
(0.7)
P 		244
(-3)
P 		250
avr 448.7
(3) 		416
(2.1) 		409.5
(1.9) 		231.5
(-3) 		217

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 332
1 2 3 4 5 6 range
A 499.6
(3)
P 		343.3
(0.2)
P 		286.2
(-0.9)
P 		235.2
(-1.8)
P 		277.1
(-1)
P 		167.8
(-3)
P 		332
B 422
(3)
P 		400.7
(2.4)
P 		219.2
(-3)
P 		326.7
(0.2)
P 		220.7
(-3)
P 		230.7
(-2.7)
P 		203
C 421.5
(1.9)
P 		467
(3)
P 		261.3
(-1.9)
P 		295.6
(-1.1)
P 		222.8
(-2.9)
P 		217.6
(-3)
P 		249
avr 447.7
(3) 		403.7
(1.9) 		255.6
(-1.8) 		285.8
(-1) 		240.2
(-2.1) 		205.4
(-3) 		242
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 165.2
(3)
P 		77.9
(-1)
P 		114.1
(0.7)
P 		34.4
(-3)
A 		131
B 127.1
(3)
P 		102.7
(1.2)
P 		90.8
(0.3)
P 		45.9
(-3)
P 		81
C 163.5
(3)
P 		136.1
(1.7)
P 		139.4
(1.8)
P 		41.1
(-3)
P 		122
avr 151.9
(3) 		105.6
(0.5) 		114.8
(1) 		40.5
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 92.1
(0.8)
P 		122.1
(3)
P 		62.3
(-1.4)
P 		59.7
(-1.6)
P 		83.6
(0.2)
P 		40.9
(-3)
P 		81
B 146.8
(3)
P 		133.4
(2.1)
P 		53.2
(-3)
P 		86.5
(-0.9)
P 		89.6
(-0.7)
P 		86
(-0.9)
P 		94
C 156.2
(3)
P 		142.5
(2.2)
P 		66.5
(-2.6)
P 		59.4
(-3)
P 		72.1
(-2.2)
P 		72.8
(-2.2)
P 		97
avr 131.7
(2.9) 		132.7
(3) 		60.7
(-3) 		68.5
(-2.4) 		81.8
(-1.2) 		66.6
(-2.5) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190092_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12197
Sequence Type Exemplar sequence
Representative Public ID F07C3.7 NCBI
Target Description F07C3.7 /REP_DB=WormBase Gene ID /WP=CE07028 /TR=Q19151 /GB=AAG24030.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=amino acid permease
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_072993(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072993 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-2) (aat-2) mRNA, complete cds. 11/11 None
SNAP00000009707 ENSEMBL cdna:SNAP chromosome:CEL140:V:9247265:9248937:-1 11/11 None
GENEFINDER00000009725 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9247265:9248937:-1 11/11 None
F07C3.7 ENSEMBL cdna:known chromosome:CEL140:V:9246997:9248945:-1 gene:F07C3.7 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
chrV:9247264-9248937(-) 100.0 100.0
Public Domain and Genome References
Gene Title amino acid permease
Gene Symbol aat-2
Ensembl F07C3.7
Entrez Gene 184126 Entrez gene
SwissProt Q19151 EMBL-EBI
WormBase CE32853 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1628947_S_AT minidiscs dm
DROSGENOME1:143268_AT minidiscs dm
CHICKEN:GGA.11260.1.S1_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 gga
CHICKEN:GGAAFFX.24805.1.S1_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 gga
HU35KSUBA:RC_AA449914_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U133A:204588_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U133_PLUS_2:204588_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-FOCUS:204588_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U133A_2:204588_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
U133_X3P:G4507054_3P_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U95AV2:33731_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U95C:59607_F_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
HG-U95D:69519_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 hs
MG-U74AV2:103818_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MOE430A:1417392_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MOUSE430A_2:1417392_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MOUSE430_2:1417392_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MOE430B:1447181_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MOUSE430_2:1447181_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 mm
MU19KSUBC:TC36949_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 7, mRNA (cDNA clone MGC:25257 IMAGE:4482816) mm
MU19KSUBC:TC36949_G_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 7, mRNA (cDNA clone MGC:25257 IMAGE:4482816) mm
MU19KSUBC:TC40922_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 7, mRNA (cDNA clone MGC:25257 IMAGE:4482816) mm
RG-U34C:RC_AI169077_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 rn
RAE230A:1387808_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 rn
RAT230_2:1387808_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_505394 Amino Acid Transporter family member (aat-2) [Caenorhabditis elegans] gb|AAG24030.2| Amino acid transporter protein 2 [Caenorhabditis elegans] 0.0
blast T28818 hypothetical protein F07C3.7 - Caenorhabditis elegans 0.0
blast CAE72139 Hypothetical protein CBG19237 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 5.0E-11
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 5.7E-16
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505394.2 12 20-39,54-76,97-119,134-156,168-190,210-232,245-267,299-321,342-364,369-391,404-426,430-452
F07C3.7 12 20-39,54-76,97-119,134-156,168-190,210-232,245-267,299-321,342-364,369-391,404-426,430-452
SNAP00000009707 12 20-39,54-76,97-119,134-156,168-190,210-232,245-267,299-321,342-364,369-391,404-426,430-452
GENEFINDER00000009725 12 20-39,54-76,97-119,134-156,168-190,210-232,245-267,299-321,342-364,369-391,404-426,430-452
Sequence
Target Sequence 
>C. ELEGANS:190092_AT
gattctcgattccgatgcagtggccatcacatttgccgacaaaattctcggaaccttcgg
aagcaagatactcatgccattaatgttcttttctggagctcgaaacagtcaactacctga
actgtttgcaatgatctcaatcagacaacttactccgattccatcattaattttccttgg
tggaacttcaatcgtcatgctcttcattggtaacgtgttccagcttattaactatctgtc
atttgctgaatcactcgttgttttctcttctgtcgctgggcttttgaaattgagattcac
aatgcctgaaaatgtgctaaacgcccgtccaatcaaaatcagtctcctgtggccaatact
gtttttccttatgtgcctctttcttttgatccttccattcttccacagtgatccatggga
actcatttacggagttttcttggtactttcaggaattcccatctacgttctcttcgtcta
caataaataccgtccaggattcattcaatctgtgtggataggcttcacacatttcattca
a

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTCTCGATTCCGATGCAGTGGCC 221 431 828 Antisense
TGCAGTGGCCATCACATTTGCCGAC 355 579 843 Antisense
ACAACTTACTCCGATTCCATCATTA 148 113 972 Antisense
TGGAACTTCAATCGTCATGCTCTTC 577 547 1008 Antisense
TGAATCACTCGTTGTTTTCTCTTCT 120 577 1074 Antisense
TCTTCTGTCGCTGGGCTTTTGAAAT 488 617 1093 Antisense
ACGCCCGTCCAATCAAAATCAGTCT 296 91 1148 Antisense
CTGTGGCCAATACTGTTTTTCCTTA 290 239 1174 Antisense
CTTCCATTCTTCCACAGTGATCCAT 571 219 1219 Antisense
TTTCAGGAATTCCCATCTACGTTCT 419 669 1274 Antisense
GATAGGCTTCACACATTTCATTCAA 545 425 1344 Antisense
Sequence Source Affymetrix Proprietary Database