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[189900_at] amino acid permease

Description B0454.6 /REP_DB=WormBase Gene ID /WP=CE07756 /TR=O17167 /GB=AAB70943.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=amino acid permease
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 48      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 91      6grp_total > 38      4grp_total > 08      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 282
1 2 3 4 range
A 148.9
(-3)
P 		157
(-2.7)
P 		189.9
(-1.3)
P 		297.2
(3)
P 		148
B 134.7
(-3)
P 		173.8
(-2.2)
P 		217
(-1.2)
P 		416.4
(3)
P 		282
C 196.3
(-1.8)
P 		151.7
(-3)
P 		227.8
(-0.9)
P 		367.9
(3)
P 		216
avr 160
(-3) 		160.8
(-3) 		211.6
(-1.5) 		360.5
(3) 		201

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 358.2
(3)
P 		199.9
(-1.7)
P 		161.6
(-2.8)
P 		155.4
(-3)
P 		243.2
(-0.4)
P 		247.4
(-0.3)
P 		203
B 285.7
(3)
P 		285.8
(3)
P 		176
(-2.3)
P 		161.3
(-3)
P 		240.5
(0.8)
P 		281.7
(2.8)
P 		125
C 201.8
(-2.2)
P 		251.6
(0.8)
P 		203.1
(-2.1)
P 		254
(0.9)
P 		188.7
(-3)
P 		288.8
(3)
P 		100
avr 281.9
(3) 		245.8
(0.9) 		180.2
(-3) 		190.2
(-2.4) 		224.1
(-0.4) 		272.6
(2.5) 		102
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 54.2
(3)
P 		34.1
(-3)
P 		49.6
(1.6)
P 		43.5
(-0.2)
P 		20
B 43
(-3)
P 		42.9
(-3)
P 		50.3
(-2)
P 		88.7
(3)
P 		46
C 65
(0.6)
P 		43.6
(-3)
P 		79.4
(3)
P 		62
(0.1)
P 		36
avr 54.1
(0.4) 		40.2
(-3) 		59.8
(1.8) 		64.7
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 66
(1.8)
P 		71.1
(2.6)
P 		35.2
(-3)
P 		39.4
(-2.3)
P 		73.4
(3)
P 		60.2
(0.9)
P 		38
B 99.4
(2.5)
P 		95.1
(2)
P 		42.7
(-3)
P 		42.7
(-3)
P 		97.7
(2.3)
P 		105.1
(3)
P 		62
C 74.8
(0.1)
P 		76.8
(0.4)
P 		51.7
(-2.9)
P 		51.1
(-3)
P 		61
(-1.7)
P 		96.7
(3)
P 		46
avr 80.1
(2) 		81
(2.1) 		43.2
(-3) 		44.4
(-2.8) 		77.4
(1.7) 		87.3
(3) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189900_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4703
Sequence Type Exemplar sequence
Representative Public ID B0454.6 NCBI
Target Description B0454.6 /REP_DB=WormBase Gene ID /WP=CE07756 /TR=O17167 /GB=AAB70943.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062027(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062027 NCBI Caenorhabditis elegans B0454.6 (B0454.6) mRNA, complete cds. 11/11 None
SNAP00000034447 ENSEMBL cdna:SNAP chromosome:CEL140:II:3032779:3035903:1 11/11 None
GENEFINDER00000034460 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3032779:3035903:1 11/11 None
B0454.6 ENSEMBL cdna:known chromosome:CEL140:II:3032775:3036119:1 gene:B0454.6 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:3032777-3035902(+) 100.0 100.0
Public Domain and Genome References
Gene Title amino acid permease
Ensembl B0454.6
Entrez Gene 173650 Entrez gene
SwissProt O17167 EMBL-EBI
WormBase CE07756 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245868_AT amino acid permease family protein at
CANINE_2:CFAAFFX.11308.1.S1_S_AT similar to solute carrier family 7, member 2 isoform 1 cfa
CANINE_2:CFAAFFX.11313.1.S1_AT similar to solute carrier family 7, member 2 isoform 1 cfa
DROSOPHILA_2:1627343_A_AT dm
DROSGENOME1:152169_AT dm
CHICKEN:GGA.10093.1.S1_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 gga
CHICKEN:GGAAFFX.8684.1.S1_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 gga
HG-U133_PLUS_2:207626_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133A:207626_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-FOCUS:207626_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133A_2:207626_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HU35KSUBC:RC_AA456311_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HU35KSUBD:RC_AA419608_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HUGENEFL:U76369_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
U133_X3P:G4507048_3P_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
U133_X3P:HS.93961.0.A1_3P_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133_PLUS_2:225516_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133B:225516_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U95AV2:38169_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U95AV2:40236_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U95B:46699_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U95C:60779_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133_PLUS_2:230658_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
HG-U133B:230658_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
U133_X3P:HS.153985.1.A1_3P_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 hs
MOE430A:1422648_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430A_2:1422648_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430_2:1422648_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOE430A:1426008_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430_2:1426008_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430A_2:1426008_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MG-U74AV2:92736_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MU11KSUBA:L29006_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOE430A:1450703_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430A_2:1450703_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MOUSE430_2:1450703_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 mm
MG-U74BV2:110182_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 (Slc7a2), mRNA mm
MOE430B:1440506_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 (Slc7a2), mRNA mm
MOUSE430_2:1440506_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 (Slc7a2), mRNA mm
MU19KSUBC:TC41065_S_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 (Slc7a2), mRNA mm
RN-U34:U53927_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 rn
RG-U34A:U53927_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 rn
RAE230A:1369460_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 rn
RAT230_2:1369460_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 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 AAB70943 Hypothetical protein B0454.6 [Caenorhabditis elegans] ref|NP_494428.1| B0454.6 [Caenorhabditis elegans] 0.0
blast CAE72454 Hypothetical protein CBG19625 [Caenorhabditis briggsae] 0.0
blast AAB70324 Hypothetical protein F23F1.6 [Caenorhabditis elegans] ref|NP_493642.1| F23F1.6 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 7.6E-11
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.4E-20
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494428.1 14 36-55,59-81,94-116,158-180,192-211,226-248,268-290,316-338,364-383,388-410,443-465,475-497,509-531,535-554
B0454.6 14 36-55,59-81,94-116,158-180,192-211,226-248,268-290,316-338,364-383,388-410,443-465,475-497,509-531,535-554
SNAP00000034447 14 36-55,59-81,94-116,158-180,192-211,226-248,268-290,316-338,364-383,388-410,443-465,475-497,509-531,535-554
GENEFINDER00000034460 14 36-55,59-81,94-116,158-180,192-211,226-248,268-290,316-338,364-383,388-410,443-465,475-497,509-531,535-554
Sequence
Target Sequence 
>C. ELEGANS:189900_AT
gagagctgagctcatggattcctgctcgaaacttctgggagtctttacccgccggcacct
cgatttccctgggtgtcgccgcgttgatcggctcatttttctggttggcattcacttttc
ggactggattttatgagcattggtatggtcaaatatcgattggtttcaatggattattga
ttgttttggtgatggcttttattctcggacaccagcagaactcactggaaactagcttca
aggttccatttgtcccattccttccgtgtctatccctcctagtcaatgtattcatgatgg
cctacttgacaactgccacatggatccggctttttgtctggatgggtgttggcctcttga
tctacttttcctatggaatccgacattccaaagaagccaagaagctcaccacaattgccg
at

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAGCTGAGCTCATGGATTCCTGC 63 393 1295 Antisense
GATTCCTGCTCGAAACTTCTGGGAG 642 431 1311 Antisense
TGATCGGCTCATTTTTCTGGTTGGC 19 565 1379 Antisense
TCTGGTTGGCATTCACTTTTCGGAC 618 607 1394 Antisense
TGGTGATGGCTTTTATTCTCGGACA 255 553 1481 Antisense
ATTCTCGGACACCAGCAGAACTCAC 123 11 1495 Antisense
TATCCCTCCTAGTCAATGTATTCAT 328 659 1565 Antisense
GATGGCCTACTTGACAACTGCCACA 193 407 1590 Antisense
AACTGCCACATGGATCCGGCTTTTT 660 141 1605 Antisense
CCTCTTGATCTACTTTTCCTATGGA 125 269 1647 Antisense
CAAGAAGCTCACCACAATTGCCGAT 369 185 1692 Antisense
Sequence Source Affymetrix Proprietary Database