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[180041_at]

Description Y49A3A.4 /REP_DB=WormBase Gene ID /WP=CE22212 /TR=Q9XW91 /GB=CAA22077.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 50      4grp_total > 33      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 2.4
(-3)
A 		29.6
(0.6)
A 		33
(1)
A 		47.9
(3)
A 		46
B 10.7
(-2.9)
A 		39.5
(3)
A 		26.3
(0.3)
A 		10
(-3)
A 		30
C 1.8
(-3)
A 		20.7
(0.4)
A 		34.5
(2.9)
P 		35.3
(3)
A 		34
avr 5
(-3) 		29.9
(2.7) 		31.3
(3) 		31.1
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 8.5
(-3)
A 		27.2
(-0.5)
A 		25.3
(-0.8)
M 		53.7
(3)
P 		9.8
(-2.8)
A 		25.3
(-0.8)
A 		45
B 17.5
(-1.8)
A 		38.9
(3)
P 		12.4
(-3)
A 		22.8
(-0.6)
A 		18.4
(-1.6)
A 		29.5
(0.9)
P 		27
C 25.7
(-0.6)
A 		37.8
(1.8)
P 		42
(2.6)
A 		44
(3)
A 		13.4
(-3)
A 		19.1
(-1.9)
A 		31
avr 17.2
(-2.2) 		34.6
(1.7) 		26.6
(-0.1) 		40.2
(3) 		13.9
(-3) 		24.6
(-0.6) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 0.9
(-3)
A 		6.4
(1.3)
A 		8.6
(3)
A 		7
(1.8)
A 		8
B 3.4
(-2)
A 		9.7
(3)
A 		6.1
(0.2)
A 		2.1
(-3)
A 		8
C 0.6
(-3)
A 		6
(-0.2)
A 		12
(3)
P 		5.9
(-0.2)
A 		11
avr 1.6
(-3) 		7.4
(1.8) 		8.9
(3) 		5
(-0.2) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 1.6
(-3)
A 		9.7
(1.1)
A 		5.5
(-1.1)
M 		13.6
(3)
P 		3
(-2.3)
A 		6.2
(-0.7)
A 		12
B 6.1
(-1.1)
A 		12.9
(3)
P 		3
(-3)
A 		6
(-1.2)
A 		7.5
(-0.3)
A 		11
(1.8)
P 		10
C 9.5
(1.3)
A 		11.5
(3)
P 		10.7
(2.3)
A 		8.8
(0.8)
A 		4.3
(-3)
A 		6.4
(-1.3)
A 		7
avr 5.7
(-2.3) 		11.4
(3) 		6.4
(-1.6) 		9.5
(1.2) 		4.9
(-3) 		7.9
(-0.2) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180041_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12771
Sequence Type Exemplar sequence
Representative Public ID Y49A3A.4 NCBI
Target Description Y49A3A.4 /REP_DB=WormBase Gene ID /WP=CE22212 /TR=Q9XW91 /GB=CAA22077.1 /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_074161(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074161 NCBI Caenorhabditis elegans Y49A3A.4 (Y49A3A.4) mRNA, complete cds. 11/11 None
SNAP00000021942 ENSEMBL cdna:SNAP chromosome:CEL140:V:14359488:14360938:-1 11/11 None
GENEFINDER00000021948 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14359488:14360929:-1 11/11 None
Y49A3A.4 ENSEMBL cdna:known chromosome:CEL140:V:14359488:14360938:-1 gene:Y49A3A.4 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:14359487-14360938(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y49A3A.4
Entrez Gene 190058 Entrez gene
SwissProt Q9XW91 EMBL-EBI
WormBase CE22212 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA22077 Hypothetical protein Y49A3A.4 [Caenorhabditis elegans] ref|NP_506562.1| Y49A3A.4 [Caenorhabditis elegans] 1.0E-123
blast CAA22077 Hypothetical protein Y49A3A.4 [Caenorhabditis elegans] ref|NP_506562.1| Y49A3A.4 [Caenorhabditis elegans] 1.0E-121
blast CAE60912 Hypothetical protein CBG04629 [Caenorhabditis briggsae] 5.0E-81
blast CAE65957 Hypothetical protein CBG11139 [Caenorhabditis briggsae] 9.0E-12
Protein Domains
Database ID Description E-Value
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 3.3E-11
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 9.6E-15
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 4.9E-13
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 3.3E-11
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 9.6E-15
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 4.9E-13
Sequence
Target Sequence 
>C. ELEGANS:180041_AT
gtttatcacccaatcgaatagaacagaagcttatggaaattgcttgtcctcttacatgtg
gatattgtattaattctaaaactggtggaacaactacaagtacagtacccacagatgaga
ttatcaaaccattcaaatgtattgatgaagctgatgattgtgcagatagagccaattttt
gtcagagaaagttctacaaacgcatgatgagtttacaatgtgcaaaaacctgcaaatttt
gtgttgacgatgacgagtacgaagaagaggaaacagaggatagccgggaaattcatattt
cgcatttgaaatccaaaatgggtgaaaaaactgttcaaaaattggaagagttgaaaatag
ttgacaatgtgattgatcttctgagaaatgcaacaactcccacgacgttcatggaaaaga
aaccgcgaaggttctcgaaaagaattgaaaatatctcatcggaaatgactgatactgcag
aatgcgtggatcgagcatcagattgtgagaggaatcagaagttgtgcacacatagagcct
attctccactttttcgtaaaatttgtgcgaagacgtgtgaatattgtacatcggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTATCACCCAATCGAATAGAACA 648 449 116 Antisense
AAATTGCTTGTCCTCTTACATGTGG 607 115 152 Antisense
GGAACAACTACAAGTACAGTACCCA 150 529 202 Antisense
GTGCAGATAGAGCCAATTTTTGTCA 226 481 275 Antisense
TGAGAAATGCAACAACTCCCACGAC 183 569 497 Antisense
CAACTCCCACGACGTTCATGGAAAA 440 185 509 Antisense
GATACTGCAGAATGCGTGGATCGAG 586 423 586 Antisense
GGATCGAGCATCAGATTGTGAGAGG 136 513 603 Antisense
GAGGAATCAGAAGTTGTGCACACAT 497 405 624 Antisense
ACATAGAGCCTATTCTCCACTTTTT 574 105 645 Antisense
GACGTGTGAATATTGTACATCGGCA 146 377 687 Antisense
Sequence Source Affymetrix Proprietary Database