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[175425_at]

Description AV200748_rc /REP_DB=TREMBL Accession /GB=AV200748 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk579h3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 27      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 50      6grp_total > 27      4grp_total > 30      6grp_highest_sub > Cu      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 657
1 2 3 4 range
A 1204.2
(3)
P 		811
(-0.8)
P 		579.1
(-3)
P 		858.4
(-0.3)
P 		625
B 1154.4
(3)
P 		757.1
(-0.9)
P 		547.1
(-3)
P 		915.2
(0.6)
P 		607
C 1064
(3)
P 		774
(-0.7)
P 		594.1
(-3)
P 		1034.5
(2.6)
P 		470
avr 1140.9
(3) 		780.7
(-0.8) 		573.4
(-3) 		936
(0.8) 		568

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 679
1 2 3 4 5 6 range
A 754.9
(3)
P 		501.6
(0)
P 		407.8
(-1.1)
P 		243.1
(-3)
P 		314.6
(-2.2)
P 		351.8
(-1.7)
P 		512
B 922.2
(3)
P 		640.1
(0)
P 		400.7
(-2.5)
P 		375
(-2.8)
P 		355.7
(-3)
P 		452.9
(-2)
P 		567
C 830.3
(3)
P 		521.7
(-0.3)
P 		306
(-2.7)
P 		275.6
(-3)
P 		343.7
(-2.3)
P 		543.1
(-0.1)
P 		555
avr 835.8
(3) 		554.5
(-0.1) 		371.5
(-2.2) 		297.9
(-3) 		338
(-2.6) 		449.3
(-1.3) 		538
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 313
1 2 3 4 range
A 438.4
(3)
P 		176.1
(-2)
P 		151.4
(-2.5)
P 		125.6
(-3)
P 		313
B 368.1
(3)
P 		187
(-1.5)
P 		126.8
(-3)
P 		195
(-1.3)
P 		241
C 352.2
(3)
P 		222.5
(-1.4)
P 		207.1
(-1.9)
P 		174.4
(-3)
P 		178
avr 386.2
(3) 		195.2
(-2.1) 		161.8
(-3) 		165
(-2.9) 		224

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 139.2
(1)
P 		178.4
(3)
P 		88.8
(-1.6)
P 		61.6
(-3)
P 		94.9
(-1.3)
P 		85.6
(-1.8)
P 		117
B 320.9
(3)
P 		213.1
(0.1)
P 		97.3
(-3)
P 		99.3
(-2.9)
P 		144.5
(-1.7)
P 		168.9
(-1.1)
P 		224
C 307.8
(3)
P 		159.2
(-0.5)
P 		77.9
(-2.5)
P 		55.4
(-3)
P 		111.2
(-1.7)
P 		181.8
(0)
P 		252
avr 256
(3) 		183.6
(0.6) 		88
(-2.5) 		72.1
(-3) 		116.9
(-1.5) 		145.4
(-0.6) 		184
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175425_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20090
Sequence Type Exemplar sequence
Representative Public ID AV200748 NCBI
Target Description AV200748_rc /REP_DB=TREMBL Accession /GB=AV200748 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk579h3 : 3prime 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_182011(10), NM_058601(10), NM_058602(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182011 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 10/11 None
NM_058601 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 10/11 None
NM_058602 NCBI Caenorhabditis elegans Amino Acid Transporter family member (aat-5) (aat-5) mRNA, complete cds. 11/11 None
C55C2.5c ENSEMBL cdna:known chromosome:CEL140:I:2571783:2576021:-1 gene:C55C2.5 10/11 None
C55C2.5a ENSEMBL cdna:known chromosome:CEL140:I:2571784:2576007:-1 gene:C55C2.5 10/11 A 
C55C2.5b ENSEMBL cdna:known chromosome:CEL140:I:2571789:2576007:-1 gene:C55C2.5 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
chrI:2571853-2572174(-) 100.0 100.0
Public Domain and Genome References
Ensembl C55C2.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAV58874 Amino acid transporter protein 5, isoform a [Caenorhabditis elegans] ref|NP_491002.2| Amino Acid Transporter family member (aat-5) [Caenorhabditis elegans] 0.0
blast T15226 hypothetical protein C55C2.5 - Caenorhabditis elegans 0.0
blast CAE60537 Hypothetical protein CBG04164 [Caenorhabditis briggsae] 0.0
blast AAV58875 Amino acid transporter protein 5, isoform b [Caenorhabditis elegans] ref|NP_491003.2| Amino Acid Transporter family member (aat-5) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-10
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 1.9E-5
Pfam IPR004841 EMBL-EBI Amino acid permease-associated region 7.4E-20
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_871811.2 7 7-29,39-61,82-104,126-148,160-182,202-224,237-259
NP_491002.2 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
NP_491003.2 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
C55C2.5c 7 7-29,39-61,82-104,126-148,160-182,202-224,237-259
C55C2.5a 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
C55C2.5b 12 7-29,39-61,82-104,126-148,160-182,202-224,237-259,284-306,335-352,357-379,392-414,419-438
Sequence
Target Sequence 
>C. ELEGANS:175425_AT
aaatgctgtagaatctccagtgtgccgtcatctcttgtggatcttatcagtgatgttcag
tagcttatcattgcttcttttttccggaatcattctcttccatatgggttaatctgttgt
ctacattgctcattattttcgttgttttcagccaatatattcatcttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGCTGTAGAATCTCCAGTGTGC 42 119 87 Antisense
GATGTTCAGTAGCTTATCATTGCTT 164 411 138 Antisense
ATCATTGCTTCTTTTTTCCGGAATC 659 29 153 Antisense
GCTTCTTTTTTCCGGAATCATTCTC 420 305 159 Antisense
GAATCATTCTCTTCCATATGGGTTA 45 329 173 Antisense
TCCATATGGGTTAATCTGTTGTCTA 540 591 185 Antisense
TAATCTGTTGTCTACATTGCTCATT 95 637 196 Antisense
GTTGTCTACATTGCTCATTATTTTC 462 437 202 Antisense
ATTGCTCATTATTTTCGTTGTTTTC 206 7 211 Antisense
TTTTCGTTGTTTTCAGCCAATATAT 17 677 222 Antisense
GTTTTCAGCCAATATATTCATCTTT 241 449 230 Antisense
Sequence Source Affymetrix Proprietary Database