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[173493_at]

Description C50465 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F59B2.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50465 /WB_GENE_ID=F59B2.2 /WP=CE20899 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk484a7 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 99      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 76      6grp_total > 94      4grp_total > 56      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1134
1 2 3 4 range
A 1155.7
(-1)
P 		1516
(1.4)
P 		1770.3
(3)
P 		837.1
(-3)
P 		933
B 1193.9
(-1.5)
P 		1418.3
(-0)
P 		1874
(3)
P 		972
(-3)
P 		902
C 974.2
(-1.6)
P 		1427.6
(1.2)
P 		1710.7
(3)
P 		740.2
(-3)
P 		971
avr 1107.9
(-1.3) 		1454
(0.9) 		1785
(3) 		849.8
(-3) 		935

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 763
1 2 3 4 5 6 range
A 1272.8
(2.3)
P 		1180.4
(1.1)
P 		863.9
(-3)
P 		1188.7
(1.2)
P 		1239.4
(1.9)
P 		1325.7
(3)
P 		462
B 850.7
(-1.2)
P 		1011
(0.3)
P 		649.5
(-3)
P 		1114.6
(1.3)
P 		1305.9
(3)
P 		1067.5
(0.8)
P 		656
C 1298.9
(1.1)
P 		1045.5
(-3)
P 		1057.2
(-2.8)
P 		1180.8
(-0.8)
P 		1412
(3)
P 		1144.2
(-1.4)
P 		367
avr 1140.8
(0.7) 		1079
(-0.1) 		856.9
(-3) 		1161.4
(1) 		1319.1
(3) 		1179.1
(1.2) 		462
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 474
1 2 3 4 range
A 420.8
(2.3)
P 		329.1
(0.6)
P 		462.8
(3)
P 		122.5
(-3)
P 		340
B 380.7
(1.6)
P 		350.3
(0.8)
P 		434.3
(3)
P 		207.1
(-3)
P 		227
C 322.5
(-0.5)
P 		410.4
(0.6)
P 		596.2
(3)
P 		124.8
(-3)
P 		471
avr 374.7
(0.9) 		363.3
(0.7) 		497.8
(3) 		151.5
(-3) 		346

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 373
1 2 3 4 5 6 range
A 234.6
(-1.8)
P 		419.8
(3)
P 		188.1
(-3)
P 		301.5
(-0.1)
P 		374
(1.8)
P 		322.8
(0.5)
P 		232
B 296
(-0.8)
P 		336.5
(-0.1)
P 		157.7
(-3)
P 		295.2
(-0.8)
P 		530.6
(3)
P 		398.1
(0.9)
P 		373
C 481.5
(3)
P 		319
(-1)
P 		269.1
(-2.2)
P 		237.5
(-3)
P 		456.9
(2.4)
P 		383
(0.6)
P 		244
avr 337.4
(0.2) 		358.4
(0.7) 		205
(-3) 		278.1
(-1.2) 		453.8
(3) 		368
(0.9) 		249
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173493_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24004
Sequence Type Exemplar sequence
Representative Public ID C50465 NCBI
Target Description C50465 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F59B2.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50465 /WB_GENE_ID=F59B2.2 /WP=CE20899 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk484a7 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066588(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066588 NCBI Caenorhabditis elegans F59B2.2 (F59B2.2) mRNA, complete cds. 11/11 None
F59B2.2 ENSEMBL cdna:known chromosome:CEL140:III:8994584:8996692:-1 gene:F59B2.2 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
chrIII:8994590-8996683(-) 98.28 100.0
Public Domain and Genome References
Gene Title
Ensembl F59B2.2
Entrez Gene 176271 Entrez gene
SwissProt P34479 EMBL-EBI
WormBase CE20899 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6865 amino acid transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5279 amino acid-polyamine transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA77582 Hypothetical protein F59B2.2 [Caenorhabditis elegans] ref|NP_498989.1| F59B2.2 [Caenorhabditis elegans] sp|P34479|YMJ2_CAEEL Hypothetical protein F59B2.2 in chromosome III 0.0
blast CAE62700 Hypothetical protein CBG06849 [Caenorhabditis briggsae] 0.0
blast CAA20995 Hypothetical protein Y38H6C.17 [Caenorhabditis elegans] ref|NP_507960.1| Y38H6C.17 [Caenorhabditis elegans] 2.0E-50
Protein Domains
Database ID Description E-Value
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498989.1 10 67-89,130-152,172-189,196-218,228-247,267-289,319-341,362-379,383-405,426-448
F59B2.2 10 67-89,130-152,172-189,196-218,228-247,267-289,319-341,362-379,383-405,426-448
Sequence
Target Sequence 
>C. ELEGANS:173493_AT
aaatctgttgacatatcagttttcataccattcatcccggttgtcacacttttcaacatt
ttctcacttttttcgatcattccatcacctcgaattctatcctaacaccggtacatagtt
ttcttctcgctttttctcatttttccatgttttattttatgtacatttcgaacttttccc
attttctcattttccctcccccgcacccaacatacactagtcactttgtcccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCTGTTGACATATCAGTTTTCA 87 119 1395 Antisense
TATCAGTTTTCATACCATTCATCCC 39 661 1408 Antisense
TTCATACCATTCATCCCGGTTGTCA 279 685 1416 Antisense
TTTCTCACTTTTTTCGATCATTCCA 642 671 1454 Antisense
TCGATCATTCCATCACCTCGAATTC 693 601 1467 Antisense
CCTCGAATTCTATCCTAACACCGGT 267 231 1482 Antisense
TTCTATCCTAACACCGGTACATAGT 280 685 1489 Antisense
CGGTACATAGTTTTCTTCTCGCTTT 3 245 1503 Antisense
TTTTCCATGTTTTATTTTATGTACA 327 675 1535 Antisense
GCACCCAACATACACTAGTCACTTT 17 313 1597 Antisense
AACATACACTAGTCACTTTGTCCCC 201 135 1603 Antisense
Sequence Source Affymetrix Proprietary Database