[Home] | [Total List]

[189929_at] amino acid permease

Description C50D2.2 /REP_DB=WormBase Gene ID /WP=CE08887 /TR=O44798 /GB=AAB94950.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=amino acid permease
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 14      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 60      6grp_total > 03      4grp_total > 45      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 256
1 2 3 4 range
A 324.1
(3)
P 		262.4
(0.1)
P 		196.9
(-3)
P 		218.1
(-2)
P 		127
B 282.1
(0.9)
P 		337.8
(3)
P 		229
(-1)
P 		176
(-3)
P 		162
C 409.5
(3)
P 		260.5
(-0.5)
P 		243.7
(-0.9)
P 		153.2
(-3)
P 		256
avr 338.6
(3) 		286.9
(1) 		223.2
(-1.4) 		182.4
(-3) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 361
1 2 3 4 5 6 range
A 486.5
(3)
P 		366.4
(0.7)
P 		266.4
(-1.3)
P 		336.2
(0.1)
P 		378.9
(0.9)
P 		176.7
(-3)
P 		310
B 486.4
(1.8)
P 		532.6
(2.9)
P 		296
(-2.6)
P 		537.7
(3)
P 		356.3
(-1.2)
P 		277.3
(-3)
P 		260
C 351.9
(-0.4)
P 		510.3
(3)
P 		306.6
(-1.4)
P 		436.4
(1.4)
P 		303
(-1.5)
P 		234.1
(-3)
P 		276
avr 441.6
(2.3) 		469.8
(3) 		289.7
(-1.5) 		436.8
(2.2) 		346.1
(-0.1) 		229.4
(-3) 		240
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 118
(3)
P 		57
(-1.3)
P 		51.5
(-1.6)
P 		31.9
(-3)
P 		86
B 90
(3)
P 		83.4
(2.2)
P 		53.1
(-1.2)
P 		37.5
(-3)
P 		53
C 135.5
(3)
P 		74.9
(-0.3)
P 		84.9
(0.2)
P 		25.8
(-3)
P 		110
avr 114.5
(3) 		71.8
(-0.1) 		63.2
(-0.7) 		31.7
(-3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 134
1 2 3 4 5 6 range
A 89.7
(0.2)
P 		130.3
(3)
P 		58
(-2)
P 		85.3
(-0.1)
P 		114.3
(1.9)
P 		43
(-3)
P 		87
B 169.2
(2.5)
P 		177.3
(3)
P 		71.9
(-3)
P 		142.4
(1)
P 		144.7
(1.1)
P 		103.4
(-1.2)
P 		105
C 130.4
(1)
P 		155.7
(3)
P 		78
(-3)
P 		87.8
(-2.2)
P 		98
(-1.5)
P 		78.4
(-3)
P 		78
avr 129.8
(1.3) 		154.4
(3) 		69.3
(-3) 		105.2
(-0.5) 		119
(0.5) 		74.9
(-2.6) 		85
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189929_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5597
Sequence Type Exemplar sequence
Representative Public ID C50D2.2 NCBI
Target Description C50D2.2 /REP_DB=WormBase Gene ID /WP=CE08887 /TR=O44798 /GB=AAB94950.1 /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_061261(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061261 NCBI Caenorhabditis elegans C50D2.2 (C50D2.2) mRNA, complete cds. 11/11 None
SNAP00000026476 ENSEMBL cdna:SNAP chromosome:CEL140:II:109203:111230:1 11/11 None
GENEFINDER00000026489 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:109203:111230:1 11/11 None
C50D2.2 ENSEMBL cdna:known chromosome:CEL140:II:109165:111402:1 gene:C50D2.2 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:109202-111230(+) 100.0 100.0
Public Domain and Genome References
Gene Title amino acid permease
Ensembl C50D2.2
Entrez Gene 183650 Entrez gene
SwissProt O44798 EMBL-EBI
WormBase CE08887 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.23112.1.S1_S_AT similar to solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 cfa
DROSOPHILA_2:1632238_AT dm
DROSGENOME1:149124_AT dm
CHICKEN:GGA.15355.1.S1_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 gga
CHICKEN:GGA.15355.2.S1_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 gga
HG-U133_PLUS_2:205864_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U133A:205864_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U133A_2:205864_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HU35KSUBB:RC_T40535_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
U133_X3P:G4759137_3P_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
U133_X3P:HS.197116.1.S1_3P_A_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U133A_2:214406_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-FOCUS:214406_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U133_PLUS_2:214406_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U133A:214406_S_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U95AV2:38897_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
HG-U95D:75363_AT Solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 hs
RAE230B:1382145_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 (predicted) rn
RAT230_2:1382145_AT solute carrier family 7 (cationic amino acid transporter, y+ system), member 4 (predicted) 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_493662 C50D2.2 [Caenorhabditis elegans] gb|AAB94950.1| Hypothetical protein C50D2.2 [Caenorhabditis elegans] 0.0
blast CAE62808 Hypothetical protein CBG06984 [Caenorhabditis briggsae] 0.0
blast CAE62828 Hypothetical protein CBG07007 [Caenorhabditis briggsae] 1.0E-149
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-29
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493662.1 13 36-55,59-81,94-116,165-182,189-211,226-248,268-290,314-336,369-391,450-472,479-501,511-533,538-555
C50D2.2 13 36-55,59-81,94-116,165-182,189-211,226-248,268-290,314-336,369-391,450-472,479-501,511-533,538-555
SNAP00000026476 13 36-55,59-81,94-116,165-182,189-211,226-248,268-290,314-336,369-391,450-472,479-501,511-533,538-555
GENEFINDER00000026489 13 36-55,59-81,94-116,165-182,189-211,226-248,268-290,314-336,369-391,450-472,479-501,511-533,538-555
Sequence
Target Sequence 
>C. ELEGANS:189929_AT
ggaactcttcttgcgtattctattgtttctgcctgtgtaatcgtacttcgctaccaacca
gcatataatgttgatgagggccaattcgacaatggaggaaaacttcgattcagcattcca
ttctgtggcttccttgataaacttcagccaggacactcgatttattatgggatgagcgta
atgattgcttcaatgttcttctcaggccttggattcagttctggatatttatatggaact
gttctctgccaaatattcttgctagtcaatattgctctgataattctctcattcctcttt
atctgcgctcattaccccaataatactccactggatttcaaggtacctctcgttcctctt
attcctgccctttcactcttaatcaacactttgatgatggttcatcttgcttggatcaca
tggctccggttagttgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACTCTTCTTGCGTATTCTATTG 662 529 1195 Antisense
TATTCTATTGTTTCTGCCTGTGTAA 622 663 1210 Antisense
TGTGTAATCGTACTTCGCTACCAAC 495 555 1228 Antisense
AAACTTCGATTCAGCATTCCATTCT 570 127 1294 Antisense
AAACTTCAGCCAGGACACTCGATTT 139 129 1333 Antisense
TCTTCTCAGGCCTTGGATTCAGTTC 9 615 1391 Antisense
TGCTCTGATAATTCTCTCATTCCTC 309 581 1467 Antisense
TGGATTTCAAGGTACCTCTCGTTCC 358 549 1526 Antisense
CCCTTTCACTCTTAATCAACACTTT 620 259 1562 Antisense
GATGGTTCATCTTGCTTGGATCACA 681 407 1590 Antisense
GATCACATGGCTCCGGTTAGTTGTT 604 421 1608 Antisense
Sequence Source Affymetrix Proprietary Database