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[183740_at]

Description Y53H1C.1 /REP_DB=WormBase Gene ID /WP=CE22438 /TR=Q9NA91 /GB=CAB55063.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 4grp_high_8_8 > 59      6grp_total > 29      4grp_total > 62      6grp_cgc > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 118
1 2 3 4 range
A 328.1
(3)
P 		220.4
(-3)
A 		284.9
(0.6)
A 		262
(-0.7)
P 		108
B 315.5
(3)
P 		313.1
(2.9)
P 		306.7
(2.5)
M 		210.2
(-3)
P 		105
C 245.5
(-3)
P 		274
(0.2)
P 		298.5
(3)
P 		269.7
(-0.3)
P 		53
avr 296.4
(3) 		269.2
(-0.3) 		296.7
(3) 		247.3
(-3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 196
1 2 3 4 5 6 range
A 309.7
(3)
A 		200.4
(-0.4)
A 		193.6
(-0.6)
A 		114.2
(-3)
A 		306.4
(2.9)
P 		249.8
(1.2)
P 		196
B 284.8
(2.9)
P 		192.1
(-2.3)
A 		201.6
(-1.8)
A 		287.3
(3)
P 		251
(1)
P 		180.4
(-3)
P 		107
C 238
(2.6)
P 		242.8
(3)
A 		210.5
(0.4)
A 		167.1
(-3)
A 		195.6
(-0.7)
P 		222.5
(1.4)
P 		76
avr 277.5
(3) 		211.8
(-1.5) 		201.9
(-2.2) 		189.5
(-3) 		251
(1.2) 		217.6
(-1.1) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 119.5
(3)
P 		47.8
(-2.3)
A 		74.5
(-0.3)
A 		38.4
(-3)
P 		81
B 100.6
(3)
P 		77.3
(0.5)
P 		71.1
(-0.2)
M 		44.8
(-3)
P 		56
C 81.3
(0.7)
P 		78.8
(0.4)
P 		104
(3)
P 		45.5
(-3)
P 		59
avr 100.5
(3) 		68
(-0.4) 		83.2
(1.2) 		42.9
(-3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 57.1
(-0.3)
A 		71.3
(1)
A 		42.2
(-1.8)
A 		29
(-3)
A 		92.5
(3)
P 		60.8
(0)
P 		64
B 99.1
(2.7)
P 		64
(-1.3)
A 		49
(-3)
A 		76.1
(0.1)
P 		102
(3)
P 		67.3
(-0.9)
P 		53
C 88.2
(3)
P 		74.1
(1.5)
A 		53.6
(-0.8)
A 		33.6
(-3)
A 		63.3
(0.3)
P 		74.5
(1.5)
P 		55
avr 81.5
(2.3) 		69.8
(0.6) 		48.3
(-2.7) 		46.2
(-3) 		85.9
(3) 		67.5
(0.2) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183740_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1888
Sequence Type Exemplar sequence
Representative Public ID Y53H1C.1 NCBI
Target Description Y53H1C.1 /REP_DB=WormBase Gene ID /WP=CE22438 /TR=Q9NA91 /GB=CAB55063.1 /SUBMIT=HINXTON /CHR=1 /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_001026617(11), NM_001026618(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026617 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-9) (aat-9) mRNA, complete cds. 11/11 None
NM_001026618 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-9) (aat-9) mRNA, complete cds. 10/11 None
GENEFINDER00000010655 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11397264:11404781:-1 11/11 None
Y53H1C.1 ENSEMBL cdna:known chromosome:CEL140:I:11396870:11404783:-1 gene:Y53H1C.1 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
chrI:11397194-11404712(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y53H1C.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB55063 Hypothetical protein Y53H1C.1a [Caenorhabditis elegans] ref|NP_001021788.1| Amino Acid Transporter family member (aat-9) [Caenorhabditis elegans] 0.0
blast CAI79268 Hypothetical protein Y53H1C.1b [Caenorhabditis elegans] ref|NP_001021789.1| Amino Acid Transporter family member (aat-9) [Caenorhabditis elegans] 0.0
blast NP_001023382 Amino Acid Transporter family member (aat-4) [Caenorhabditis elegans] gb|AAQ01523.1| Amino acid transporter protein 4, isoform b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 2.7E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021788.1 12 21-40,55-77,89-111,142-164,173-195,215-234,255-277,300-322,352-367,372-394,407-429,433-452
NP_001021789.1 12 21-40,55-77,89-111,142-164,173-195,215-234,255-277,300-322,352-367,372-394,407-429,433-452
Y53H1C.1 12 21-40,55-77,89-111,142-164,173-195,215-234,255-277,300-322,352-367,372-394,407-429,433-452
GENEFINDER00000010655 12 21-40,55-77,89-111,142-164,173-195,215-234,255-277,300-322,352-367,372-394,407-429,433-452
Sequence
Target Sequence 
>C. ELEGANS:183740_AT
cacaatcgccgtcacttttgtcgatactgagagcctaatcacctacgtaacatttgtaat
gttcggccaacgcgtgttcacaatggcggcactattgtggatcagatatcgaaatattcc
cgtacatcccgacgcaatccgggttccactcatcttttcgattctttttttcatgattac
catcgctcttgtcgtcaccccgtttatcgaggattttacgaccacaatcgtcggcgtcgg
actggttttgatgggtttcctgttgtatatgatttttatgaaaccgaagcagcttcccgg
atttctttacagatttaatgacggtataacacgtgtcacgtgtaaaatcctattcacaac
gcccgacttgaagcacgcatcggaaattgaaacgctgaaatccgacggtgagcttaaccg
tggagagactctttcatcacgatttcataatgaatctgtcgtttcaaacgacgaacgtac
aacactctcgacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACAATCGCCGTCACTTTTGTCGAT 630 193 1092 Antisense
AGAGCCTAATCACCTACGTAACATT 461 65 1121 Antisense
CAACGCGTGTTCACAATGGCGGCAC 405 181 1159 Antisense
GTACATCCCGACGCAATCCGGGTTC 236 459 1213 Antisense
TTTTCATGATTACCATCGCTCTTGT 356 673 1259 Antisense
TCGTCACCCCGTTTATCGAGGATTT 108 605 1283 Antisense
TACGACCACAATCGTCGGCGTCGGA 571 643 1308 Antisense
AACCGAAGCAGCTTCCCGGATTTCT 651 145 1373 Antisense
CTATTCACAACGCCCGACTTGAAGC 703 221 1441 Antisense
GGAGAGACTCTTTCATCACGATTTC 439 519 1513 Antisense
GACGAACGTACAACACTCTCGACAT 538 377 1561 Antisense
Sequence Source Affymetrix Proprietary Database