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[183492_at]

Description Y39A1A.9 /REP_DB=WormBase Gene ID /WP=CE19128 /TR=Q9XX27 /GB=CAA21013.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 0      6grp_highest_nonorm > 42      6grp_total > 09      4grp_total > 50      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 987
1 2 3 4 range
A 324.9
(-1.9)
P 		1111.9
(3)
P 		574.4
(-0.4)
P 		155.9
(-3)
A 		956
B 336.4
(-1.6)
P 		1060.2
(3)
P 		694.8
(0.7)
P 		125
(-3)
M 		935
C 370.2
(-1.7)
P 		944.6
(3)
P 		622.6
(0.3)
P 		218.8
(-3)
A 		726
avr 343.8
(-1.8) 		1038.9
(3) 		630.6
(0.2) 		166.6
(-3) 		872

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1074
1 2 3 4 5 6 range
A 1157.5
(3)
P 		785.1
(0.7)
P 		737.1
(0.4)
P 		1165.5
(3)
P 		826.7
(0.9)
P 		177.3
(-3)
P 		988
B 1005.3
(2.2)
P 		680.1
(0.3)
P 		1049.4
(2.4)
P 		1149.7
(3)
P 		776.7
(0.9)
P 		106.1
(-3)
P 		1044
C 1144
(3)
P 		689.8
(0.4)
P 		943.7
(1.9)
P 		1035.3
(2.4)
P 		987.1
(2.1)
P 		91.9
(-3)
P 		1052
avr 1102.3
(2.9) 		718.3
(0.6) 		910.1
(1.7) 		1116.8
(3) 		863.5
(1.5) 		125.1
(-3) 		992
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 249
1 2 3 4 range
A 118.3
(-0.4)
P 		241.4
(3)
P 		150.2
(0.5)
P 		22.8
(-3)
A 		219
B 107.3
(-0.9)
P 		261.9
(3)
P 		161
(0.4)
P 		26.6
(-3)
M 		235
C 122.5
(-0.8)
P 		271.6
(3)
P 		217
(1.6)
P 		36.9
(-3)
A 		235
avr 116
(-0.7) 		258.3
(3) 		176.1
(0.9) 		28.8
(-3) 		230

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 393
1 2 3 4 5 6 range
A 213.4
(1)
P 		279.2
(2.6)
P 		160.5
(-0.2)
P 		295.6
(3)
P 		249.5
(1.9)
P 		43.2
(-3)
P 		252
B 349.8
(3)
P 		226.4
(0.6)
P 		254.8
(1.2)
P 		304.5
(2.1)
P 		315.6
(2.3)
P 		39.6
(-3)
P 		310
C 424
(3)
P 		210.5
(-0.3)
P 		240.2
(0.2)
P 		208.2
(-0.3)
P 		319.4
(1.4)
P 		30.8
(-3)
P 		393
avr 329.1
(3) 		238.7
(1.1) 		218.5
(0.7) 		269.4
(1.8) 		294.8
(2.3) 		37.9
(-3) 		291
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183492_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7441
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.9 NCBI
Target Description Y39A1A.9 /REP_DB=WormBase Gene ID /WP=CE19128 /TR=Q9XX27 /GB=CAA21013.1 /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_066943(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066943 NCBI Caenorhabditis elegans Y39A1A.9 (Y39A1A.9) mRNA, complete cds. 11/11 None
SNAP00000012911 ENSEMBL cdna:SNAP chromosome:CEL140:III:10630500:10631914:-1 11/11 None
GENEFINDER00000012945 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10630500:10634801:-1 11/11 None
Y39A1A.9 ENSEMBL cdna:known chromosome:CEL140:III:10629955:10633378:-1 gene:Y39A1A.9 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
chrIII:10630495-10634797(-) 98.41 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1A.9
Entrez Gene 176484 Entrez gene
SwissProt Q9XX27 EMBL-EBI
WormBase CE38117 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21013 Hypothetical protein Y39A1A.9 [Caenorhabditis elegans] ref|NP_499344.2| Y39A1A.9 [Caenorhabditis elegans] 0.0
blast CAE71422 Hypothetical protein CBG18333 [Caenorhabditis briggsae] 1.0E-149
blast XP_418501 PREDICTED: similar to obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF [Gallus gallus] 2.0E-20
Sequence
Target Sequence 
>C. ELEGANS:183492_AT
agacagaagctgaacttgcccgtcacaaccttggaaaaaagatatcctcgtcaaacgggc
tcccaatcccaaaacttccaactgctccatcacgcattgatagaatggttgtggacttct
tcagggagcacgcaaggatcagcacactcctggcaaaaatggagcagctcaccggaagat
caatgccactagcagctcatcaaacacttgcagagctccttcaagcagtcaccagcctct
accacagccgtgttcatgagcgagccctgattctacagcagttgagaggagaagccattc
actatgatgaggagaaagaagccggagtcctcatcgaaatcctgtgcctagttcagcaag
cggccacacgagtccgcgccgccaactggtattgcctcatgacaacgctcggcccattgg
acgccactcagaaaatgcagatggatcagctcgcctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGACAGAAGCTGAACTTGCCCGTCA 403 71 1514 Antisense
AAGATATCCTCGTCAAACGGGCTCC 265 155 1552 Antisense
ATGGTTGTGGACTTCTTCAGGGAGC 576 49 1618 Antisense
GATCAATGCCACTAGCAGCTCATCA 395 421 1691 Antisense
TTGCAGAGCTCCTTCAAGCAGTCAC 486 691 1721 Antisense
CTCTACCACAGCCGTGTTCATGAGC 520 229 1750 Antisense
CATGAGCGAGCCCTGATTCTACAGC 185 211 1768 Antisense
AGAAGCCGGAGTCCTCATCGAAATC 640 73 1830 Antisense
GTGCCTAGTTCAGCAAGCGGCCACA 669 477 1857 Antisense
GTATTGCCTCATGACAACGCTCGGC 308 453 1902 Antisense
AAATGCAGATGGATCAGCTCGCCTC 42 121 1946 Antisense
Sequence Source Affymetrix Proprietary Database