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[184370_at]

Description Y39D8A.1 /REP_DB=WormBase Gene ID /WP=CE20233 /TR=Q9TXV9 /GB=AAC69224.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 01      6grp_total > 23      4grp_total > 46      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 201
1 2 3 4 range
A 275.1
(3)
P 		104.9
(-2.7)
A 		95.1
(-3)
A 		104.5
(-2.7)
A 		180
B 255.4
(3)
P 		134.9
(-1)
A 		134.3
(-1)
P 		73.7
(-3)
A 		182
C 263.3
(3)
P 		139.4
(-1.6)
M 		100.4
(-3)
P 		119.7
(-2.3)
P 		163
avr 264.6
(3) 		126.4
(-2) 		109.9
(-2.6) 		99.3
(-3) 		165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 226
1 2 3 4 5 6 range
A 275.5
(3)
P 		198.7
(0.8)
P 		151.1
(-0.6)
P 		139
(-0.9)
P 		126.4
(-1.3)
P 		68.1
(-3)
P 		207
B 216.6
(3)
P 		162.8
(0.8)
P 		194.1
(2.1)
P 		180.4
(1.5)
P 		89.2
(-2.1)
P 		68.1
(-3)
M 		149
C 234.6
(3)
P 		214
(2.3)
P 		196
(1.7)
P 		192
(1.6)
P 		85.4
(-1.8)
P 		49.6
(-3)
A 		185
avr 242.2
(3) 		191.8
(1.3) 		180.4
(0.9) 		170.5
(0.6) 		100.3
(-1.7) 		61.9
(-3) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 100.2
(3)
P 		22.8
(-2.5)
A 		24.9
(-2.3)
A 		15.3
(-3)
A 		85
B 81.4
(3)
P 		33.3
(-1.4)
A 		31.1
(-1.6)
P 		15.7
(-3)
A 		66
C 87.2
(3)
P 		40.1
(-1.2)
M 		35
(-1.7)
P 		20.2
(-3)
P 		67
avr 89.6
(3) 		32.1
(-1.8) 		30.3
(-1.9) 		17.1
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 50.8
(0.8)
P 		70.7
(3)
P 		32.9
(-1.2)
P 		35.3
(-0.9)
P 		38.2
(-0.6)
P 		16.6
(-3)
P 		54
B 75.4
(3)
P 		54.2
(0.5)
P 		47.1
(-0.4)
P 		47.8
(-0.3)
P 		36.2
(-1.7)
P 		25.4
(-3)
M 		50
C 87
(3)
P 		65.3
(1.2)
P 		49.9
(-0.2)
P 		38.6
(-1.1)
P 		27.6
(-2.1)
P 		16.6
(-3)
A 		70
avr 71.1
(3) 		63.4
(2.1) 		43.3
(-0.2) 		40.6
(-0.5) 		34
(-1.3) 		19.5
(-3) 		52
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184370_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15687
Sequence Type Exemplar sequence
Representative Public ID Y39D8A.1 NCBI
Target Description Y39D8A.1 /REP_DB=WormBase Gene ID /WP=CE20233 /TR=Q9TXV9 /GB=AAC69224.1 /SUBMIT=ST.LOUIS /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_171430(11), NM_001029061(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171430 NCBI Caenorhabditis elegans Y39D8A.1a (Y39D8A.1) mRNA, complete cds. 11/11 None
NM_001029061 NCBI Caenorhabditis elegans Y39D8A.1d (Y39D8A.1) mRNA, complete cds. 11/11 None
GENEFINDER00000013794 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:419574:421178:1 9/11 None
Y39D8A.1a ENSEMBL cdna:known chromosome:CEL140:V:419516:421668:1 gene:Y39D8A.1 11/11 None
Y39D8A.1d ENSEMBL cdna:known chromosome:CEL140:V:419538:421583:1 gene:Y39D8A.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
178565 4 2 NM_001029061 184370_at (11)
NM_171430 184370_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:419537-421583(+) 99.22 100.0
Public Domain and Genome References
Ensembl Y39D8A.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM48557 Hypothetical protein Y39D8A.1a [Caenorhabditis elegans] ref|NP_741503.1| Y39D8A.1a [Caenorhabditis elegans] 0.0
blast AAQ91895 Hypothetical protein Y39D8A.1d [Caenorhabditis elegans] ref|NP_001024232.1| Y39D8A.1d [Caenorhabditis elegans] pir||T33784 hypothetical protein Y39D8A.1 - Caenorhabditis elegans 0.0
blast AAB37612 Hypothetical protein B0554.5 [Caenorhabditis elegans] ref|NP_503197.1| B0554.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 1.1E-83
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 5.1E-92
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 1.2E-83
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741503.1 10 7-25,54-76,83-105,137-159,189-211,244-266,279-301,316-335,348-367,415-437
NP_001024232.1 12 7-25,54-76,81-100,105-127,140-162,192-214,253-275,285-307,320-339,354-376,396-415,420-442
Y39D8A.1a 10 7-25,54-76,83-105,137-159,189-211,244-266,279-301,316-335,348-367,415-437
Y39D8A.1d 12 7-25,54-76,81-100,105-127,140-162,192-214,253-275,285-307,320-339,354-376,396-415,420-442
GENEFINDER00000013794 9 42-64,69-88,93-115,128-150,180-202,241-263,273-295,308-327,342-361
Sequence
Target Sequence 
>C. ELEGANS:184370_AT
tttcccgactgcgatgagctttaccatgcagaactcaaagttgatctacctagcagcagt
ctatagtctaggagttggttccggggaggttataattggactagcgatctcattcctcag
caagcgtatcaaagatttcgggcaaaagccaactatgacgattggcgcaatcttcatcac
gatgtattgtgccatgatccatatgtctactccgtacgatgctccgattaggccaactag
caaggagccacttttttttggtcattcctaccttttggccctaatcataggcttattttg
tggaatcggagattgctgtgtaaatagtgtaagatcagtgatttgtgcgttgctgatgcc
aaaaagaagaccacaagcgttttcagtgtcgaagatttatcatgcttttggatctacgat
tctattcttcatgagccccatcacaccactctacgtctacacaatcggcctgccaattct
cg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCCCGACTGCGATGAGCTTTACC 485 669 822 Antisense
AGTTGATCTACCTAGCAGCAGTCTA 157 63 860 Antisense
ATTGGACTAGCGATCTCATTCCTCA 524 3 916 Antisense
ATCTCATTCCTCAGCAAGCGTATCA 111 33 928 Antisense
GTGCCATGATCCATATGTCTACTCC 110 479 1010 Antisense
GATGCTCCGATTAGGCCAACTAGCA 636 413 1039 Antisense
CCTACCTTTTGGCCCTAATCATAGG 317 267 1088 Antisense
GTGATTTGTGCGTTGCTGATGCCAA 577 483 1159 Antisense
GACCACAAGCGTTTTCAGTGTCGAA 520 383 1190 Antisense
TTGGATCTACGATTCTATTCTTCAT 207 709 1229 Antisense
TACACAATCGGCCTGCCAATTCTCG 632 641 1279 Antisense
Sequence Source Affymetrix Proprietary Database