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[186259_at]

Description Y38H6C.17 /REP_DB=WormBase Gene ID /WP=CE19111 /TR=Q9XX44 /GB=CAA20995.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 18      6grp_high1_10_10 > 80      6grp_highest_nonorm > 90      6grp_total > 92      4grp_total > 22      6grp_highest_sub > 04_05      6grp_high1_sub > 02_03_04_05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 123.1
(3)
P 		18.5
(-3)
A 		19.2
(-3)
A 		118.3
(2.7)
A 		105
B 175.5
(3)
P 		82.3
(-0.5)
A 		17
(-3)
A 		107.8
(0.4)
A 		159
C 114.3
(1.5)
P 		43.2
(-2.1)
A 		26.4
(-3)
A 		144
(3)
P 		118
avr 137.6
(3) 		48
(-1.6) 		20.9
(-3) 		123.4
(2.3) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 172.5
(2.2)
P 		120.5
(-3)
P 		165.4
(1.5)
P 		122.7
(-2.8)
P 		181
(3)
P 		141.1
(-1)
P 		61
B 134.2
(0.6)
P 		114.8
(-0.6)
P 		119.1
(-0.3)
P 		158.7
(2)
P 		175.4
(3)
P 		73.1
(-3)
P 		102
C 101.2
(-2.7)
P 		172.5
(2.2)
P 		184.4
(3)
P 		152.4
(0.8)
P 		151.4
(0.7)
P 		96.9
(-3)
P 		88
avr 136
(-0) 		135.9
(-0.1) 		156.3
(1.8) 		144.6
(0.7) 		169.3
(3) 		103.7
(-3) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 44.8
(3)
P 		4
(-3)
A 		5
(-2.9)
A 		17.3
(-1)
A 		41
B 56
(3)
P 		20.3
(-1.1)
A 		3.9
(-3)
A 		23
(-0.8)
A 		52
C 37.8
(3)
P 		12.4
(-2.3)
A 		9.2
(-3)
A 		24.3
(0.2)
P 		29
avr 46.2
(3) 		12.2
(-2.1) 		6
(-3) 		21.5
(-0.7) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 31.8
(-2.8)
P 		42.8
(-0)
P 		36
(-1.7)
P 		31.1
(-3)
P 		54.6
(3)
P 		34.4
(-2.2)
P 		24
B 46.7
(-0.3)
P 		38.2
(-1.5)
P 		28.9
(-2.8)
P 		42
(-1)
P 		71.3
(3)
P 		27.2
(-3)
P 		44
C 37.5
(-1.1)
P 		52.6
(3)
P 		46.9
(1.4)
P 		30.6
(-3)
P 		49
(2)
P 		32.4
(-2.5)
P 		22
avr 38.7
(-1.4) 		44.5
(-0.1) 		37.3
(-1.7) 		34.6
(-2.3) 		58.3
(3) 		31.3
(-3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186259_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14098
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.17 NCBI
Target Description Y38H6C.17 /REP_DB=WormBase Gene ID /WP=CE19111 /TR=Q9XX44 /GB=CAA20995.1 /SUBMIT=HINXTON /CHR=5 /FEA=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_075559(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075559 NCBI Caenorhabditis elegans Y38H6C.17 (Y38H6C.17) mRNA, complete cds. 11/11 None
SNAP00000041329 ENSEMBL cdna:SNAP chromosome:CEL140:V:20538700:20539975:-1 9/11 None
GENEFINDER00000041347 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20534559:20545199:-1 11/11 None
Y38H6C.17 ENSEMBL cdna:known chromosome:CEL140:V:20538446:20542363:-1 gene:Y38H6C.17 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:20538508-20542363(-) 99.5 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38H6C.17
Entrez Gene 189698 Entrez gene
SwissProt Q9XX44 EMBL-EBI
WormBase CE19111 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 CAA20995 Hypothetical protein Y38H6C.17 [Caenorhabditis elegans] ref|NP_507960.1| Y38H6C.17 [Caenorhabditis elegans] 0.0
blast CAB10025 Hypothetical protein H32K16.1 [Caenorhabditis elegans] ref|NP_492453.1| H32K16.1 [Caenorhabditis elegans] 1.0E-159
blast CAE67048 Hypothetical protein CBG12455 [Caenorhabditis briggsae] 1.0E-156
blast CAB10025 Hypothetical protein H32K16.1 [Caenorhabditis elegans] ref|NP_492453.1| H32K16.1 [Caenorhabditis elegans] 1.0E-156
blast CAE67048 Hypothetical protein CBG12455 [Caenorhabditis briggsae] 1.0E-153
blast CAA20995 Hypothetical protein Y38H6C.17 [Caenorhabditis elegans] ref|NP_507960.1| Y38H6C.17 [Caenorhabditis elegans] 2.0E-97
Protein Domains
Database ID Description E-Value
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.8E-110
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.5E-55
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.8E-110
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507960.1 11 52-71,76-95,141-163,183-200,207-229,239-258,279-301,329-351,364-386,401-423,436-458
Y38H6C.17 11 52-71,76-95,141-163,183-200,207-229,239-258,279-301,329-351,364-386,401-423,436-458
SNAP00000041329 6 12-31,46-65,86-108,136-158,178-195,205-227
GENEFINDER00000041347 16 221-240,245-264,310-332,352-369,376-398,408-427,448-470,498-520,533-555,570-592,605-624,629-646,653-675,717-736,743-765,780-802
Sequence
Target Sequence 
>C. ELEGANS:186259_AT
ggggttctgtcaactgccatgaacgtggtcatagttttttatgcatttctaggattcttt
gggtatattgcgtttggccccgatgtgagaggaagcttaacactgaatttaccaaattca
gtcctatcagtaactgtcaaaggccttctggtgctaaaagttttactgggcaatgctctc
caactattcataattgttcaaatgctcctgcccagccttcaagcaaaagtctcagaaaac
cgaaagttgatccacaagattctgccatatgctcttcgactcagtcttatgcttgtttca
ttaagccttgctctcgctgtgccaaacttgacagaaatcattccatttgttgggatcacc
tcaggactgttaatttctttaataataccgtcatttttggattgtatagtgttcttgccg
gtgctgaaggagcggggtgaaaaaaaaaactactaccaaaaaatgatcacgaacattgtc
atttttgtgctcggttggctactacttggctcaggatta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGGTTCTGTCAACTGCCATGAACG 44 497 856 Antisense
TGGGTATATTGCGTTTGGCCCCGAT 325 553 915 Antisense
AACTGTCAAAGGCCTTCTGGTGCTA 145 141 987 Antisense
GTTTTACTGGGCAATGCTCTCCAAC 367 449 1015 Antisense
CAAGATTCTGCCATATGCTCTTCGA 258 185 1110 Antisense
TCGACTCAGTCTTATGCTTGTTTCA 426 601 1131 Antisense
TTGTTTCATTAAGCCTTGCTCTCGC 617 705 1148 Antisense
GCTCTCGCTGTGCCAAACTTGACAG 1 301 1165 Antisense
GATTGTATAGTGTTCTTGCCGGTGC 91 435 1255 Antisense
GTCATTTTTGTGCTCGGTTGGCTAC 147 457 1333 Antisense
TTGGCTACTACTTGGCTCAGGATTA 345 709 1350 Antisense
Sequence Source Affymetrix Proprietary Database