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[183543_at]

Description Y39A1A.1 /REP_DB=WormBase Gene ID /WP=CE19119 /TR=Q9XX21 /GB=CAA21019.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 66      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 98      6grp_total > 67      4grp_total > 03      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4432
1 2 3 4 range
A 1841.6
(-2.3)
P 		1744.4
(-2.5)
P 		1398.6
(-3)
P 		5230.1
(3)
P 		3832
B 2040
(-2.3)
P 		1703
(-2.8)
P 		1531.1
(-3)
P 		5830.5
(3)
P 		4299
C 1805.4
(-2.5)
P 		1715.5
(-2.7)
P 		1516.6
(-3)
P 		5005.9
(3)
P 		3489
avr 1895.7
(-2.4) 		1721
(-2.6) 		1482.1
(-3) 		5355.5
(3) 		3873

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1991
1 2 3 4 5 6 range
A 1008.4
(-1.3)
P 		721.8
(-3)
P 		901.4
(-1.9)
P 		796
(-2.6)
P 		1367.2
(0.9)
P 		1714.5
(3)
P 		993
B 1057.6
(-1.6)
P 		753
(-2.6)
P 		994.4
(-1.8)
P 		1405.1
(-0.5)
P 		632.5
(-3)
P 		2515.1
(3)
P 		1883
C 666.7
(-3)
P 		746.8
(-2.8)
P 		975.3
(-2.1)
P 		1104
(-1.7)
P 		721.6
(-2.8)
P 		2623.8
(3)
P 		1957
avr 910.9
(-2.3) 		740.5
(-3) 		957
(-2.2) 		1101.7
(-1.6) 		907.1
(-2.4) 		2284.5
(3) 		1544
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 888
1 2 3 4 range
A 670.5
(1.6)
P 		378.7
(-2.8)
P 		365.6
(-3)
P 		765.6
(3)
P 		400
B 650.5
(-1)
P 		420.6
(-2.6)
P 		354.8
(-3)
P 		1242.5
(3)
P 		888
C 597.6
(-1.2)
P 		493.2
(-3)
P 		528.6
(-2.4)
P 		844.1
(3)
P 		351
avr 639.5
(-0.5) 		430.8
(-2.8) 		416.3
(-3) 		950.7
(3) 		534

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 752
1 2 3 4 5 6 range
A 185.9
(-3)
P 		256.7
(-1.2)
P 		196.3
(-2.7)
P 		201.9
(-2.6)
P 		412.6
(2.9)
P 		417.4
(3)
P 		232
B 368
(-1.9)
P 		250.6
(-2.9)
P 		241.5
(-3)
P 		372.2
(-1.9)
P 		257
(-2.9)
P 		937.9
(3)
P 		696
C 247.1
(-2.8)
P 		227.9
(-2.9)
P 		248.2
(-2.8)
P 		222
(-3)
P 		233.5
(-2.9)
P 		878.3
(3)
P 		656
avr 267
(-2.6) 		245.1
(-2.8) 		228.7
(-3) 		265.4
(-2.6) 		301
(-2.2) 		744.5
(3) 		516
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183543_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6731
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.1 NCBI
Target Description Y39A1A.1 /REP_DB=WormBase Gene ID /WP=CE19119 /TR=Q9XX21 /GB=CAA21019.1 /SUBMIT=HINXTON /CHR=3 /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_066934(11), NM_181930(11), NM_001027664(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066934 NCBI Caenorhabditis elegans Y39A1A.1a (Y39A1A.1) mRNA, complete cds. 11/11 None
NM_181930 NCBI Caenorhabditis elegans Y39A1A.1b (Y39A1A.1) mRNA, complete cds. 11/11 None
NM_001027664 NCBI Caenorhabditis elegans Y39A1A.1c (Y39A1A.1) mRNA, complete cds. 11/11 None
GENEFINDER00000012940 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10596097:10600052:-1 11/11 None
SNAP00000012902 ENSEMBL cdna:SNAP chromosome:CEL140:III:10596106:10599528:-1 11/11 None
Y39A1A.1a ENSEMBL cdna:known chromosome:CEL140:III:10596491:10600052:-1 gene:Y39A1A.1 11/11 None
Y39A1A.1b ENSEMBL cdna:known chromosome:CEL140:III:10596834:10600052:-1 gene:Y39A1A.1 11/11 None
Y39A1A.1c ENSEMBL cdna:known chromosome:CEL140:III:10596834:10599533:-1 gene:Y39A1A.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
chrIII:10596829-10600048(-) 94.23 100.0
Public Domain and Genome References
Ensembl Y39A1A.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21019 Hypothetical protein Y39A1A.1a [Caenorhabditis elegans] ref|NP_499335.2| Y39A1A.1a [Caenorhabditis elegans] 0.0
blast CAD60426 Hypothetical protein Y39A1A.1b [Caenorhabditis elegans] ref|NP_871659.1| Y39A1A.1b [Caenorhabditis elegans] 0.0
blast CAI06057 Hypothetical protein Y39A1A.1c [Caenorhabditis elegans] ref|NP_001022835.1| Y39A1A.1c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005355 EMBL-EBI Protein of unknown function UPF0148 6.6E-5
Pfam IPR005355 EMBL-EBI Protein of unknown function UPF0148 6.6E-5
Sequence
Target Sequence 
>C. ELEGANS:183543_AT
gatccaacgacggctgcctgttatcttgcttatcccggcttcaagacgggatccgttcaa
attatgcatctaaatgcactgaccgcccgtgaatcgaaatccccgattgtcattgaagca
cacctcacagatattgcccaagtcgcgttgaattgtcagggaacccttgtcgccacagga
tctactaagggtactgtaattcgagttttcgacgccagaaccaagggaccactttatgaa
cttcgtcgtggaactgttcaggctcaccttcagtgtatggctttttcaccgtgctcgagt
tatttggcagtggctagtgataagggaactctgcatatgtttggaattcgagatgctgag
ccacaaaaaaagaaaaatgtgctcgaaaggagccgtggaagctcaagtattgtgaaaatt
cagctggataggcctgtcatggctattggattcggaaaaaaaacgccgaaaaatctgcaa
agtatcatcgcaatctgcgcagacgccacgtactggagacacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCCAACGACGGCTGCCTGTTATC 598 415 751 Antisense
ATCTTGCTTATCCCGGCTTCAAGAC 407 29 773 Antisense
CACTGACCGCCCGTGAATCGAAATC 102 199 827 Antisense
GAAGCACACCTCACAGATATTGCCC 279 341 865 Antisense
GATATTGCCCAAGTCGCGTTGAATT 89 427 880 Antisense
CCTTGTCGCCACAGGATCTACTAAG 53 269 915 Antisense
GTCGTGGAACTGTTCAGGCTCACCT 662 471 995 Antisense
AGGCTCACCTTCAGTGTATGGCTTT 5 55 1010 Antisense
TTTCACCGTGCTCGAGTTATTTGGC 637 669 1034 Antisense
GCCTGTCATGGCTATTGGATTCGGA 521 283 1182 Antisense
CAGACGCCACGTACTGGAGACACGA 569 205 1250 Antisense
Sequence Source Affymetrix Proprietary Database