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[181757_at]

Description Y39A1C.1 /REP_DB=WormBase Gene ID /WP=CE19146 /TR=Q9XXE7 /GB=CAA19507.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 44      6grp_high1_10_10 > 43      4grp_highest_8_8 > 0      4grp_high_8_8 > 37      6grp_highest_nonorm > 71      6grp_total > 10      4grp_total > 42      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 244
1 2 3 4 range
A 302.9
(-3)
P 		532.5
(3)
P 		365.5
(-1.4)
P 		370.9
(-1.2)
P 		230
B 342.4
(-0.7)
P 		432.4
(3)
P 		340.4
(-0.8)
P 		288.3
(-3)
P 		144
C 295.3
(-3)
P 		431.8
(3)
P 		361.5
(-0.1)
P 		367.5
(0.2)
P 		137
avr 313.5
(-3) 		465.6
(3) 		355.8
(-1.3) 		342.2
(-1.9) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 301.2
(-0.8)
P 		339.2
(0.9)
P 		389.2
(3)
P 		357.4
(1.6)
P 		284.7
(-1.5)
P 		248.6
(-3)
P 		141
B 285.1
(-3)
P 		408.5
(3)
P 		304.4
(-2.1)
P 		299.3
(-2.3)
P 		366.6
(1)
P 		311.3
(-1.7)
P 		123
C 320.3
(-2)
P 		412.7
(3)
P 		314.4
(-2.3)
P 		352.1
(-0.2)
P 		300.7
(-3)
P 		351.4
(-0.3)
P 		112
avr 302.2
(-3) 		386.8
(3) 		336
(-0.6) 		336.3
(-0.6) 		317.3
(-1.9) 		303.8
(-2.9) 		85
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 110.3
(2.5)
P 		115.6
(3)
P 		95.5
(1)
P 		54.3
(-3)
P 		61
B 109.2
(3)
P 		106.8
(2.7)
P 		78.9
(-0.8)
P 		61.4
(-3)
P 		48
C 97.8
(0.4)
P 		124.1
(2.8)
P 		126
(3)
P 		62
(-3)
P 		64
avr 105.8
(2) 		115.5
(3) 		100.1
(1.4) 		59.2
(-3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 55.5
(-3)
P 		120.6
(3)
P 		84.8
(-0.3)
P 		90.6
(0.2)
P 		85.9
(-0.2)
P 		60.5
(-2.5)
P 		65
B 99.2
(-1)
P 		136
(2)
P 		73.9
(-3)
P 		79.3
(-2.6)
P 		149
(3)
P 		116.1
(0.4)
P 		75
C 118.7
(2.2)
P 		125.9
(3)
P 		80
(-2)
P 		70.8
(-3)
P 		97.3
(-0.1)
P 		117.6
(2.1)
P 		55
avr 91.1
(-1.6) 		127.5
(3) 		79.6
(-3) 		80.2
(-2.9) 		110.7
(0.9) 		98.1
(-0.7) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181757_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7902
Sequence Type Exemplar sequence
Representative Public ID Y39A1C.1 NCBI
Target Description Y39A1C.1 /REP_DB=WormBase Gene ID /WP=CE19146 /TR=Q9XXE7 /GB=CAA19507.1 /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_066990(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066990 NCBI Caenorhabditis elegans Y39A1C.1 (Y39A1C.1) mRNA, complete cds. 11/11 None
GENEFINDER00000042758 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10856704:10857979:1 11/11 None
Y39A1C.1 ENSEMBL cdna:known chromosome:CEL140:III:10856704:10857979:1 gene:Y39A1C.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000042752 3/11 Cross Hyb Matching Probes None
SNAP00000042754 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:10856699-10857975(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1C.1
Entrez Gene 189715 Entrez gene
SwissProt Q9XXE7 EMBL-EBI
WormBase CE19146 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA19507 Hypothetical protein Y39A1C.1 [Caenorhabditis elegans] ref|NP_499391.1| Y39A1C.1 [Caenorhabditis elegans] 4.0E-41
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499391.1 1 24-46
Y39A1C.1 1 24-46
GENEFINDER00000042758 1 24-46
Sequence
Target Sequence 
>C. ELEGANS:181757_AT
gaaatcaatcatttatcggcacttgatcaatttgtggctcccggcttacgattatggatg
ctcattgcacttgttggaggagttttgctcattatgattgtcatcgtgtgctgcttcatg
agaatccgaattccacgtacaaaacgacaaatcgatctgattgctgcgaaacgaaaattg
agaaaaagcaccaaaaattcggcagaagccaatgctcacaacgacgaacgtgctcaggca
atcgtgatgaactcaatgccttctggaggtggtggaggtgctccgagcacaagcagctca
cgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATCAATCATTTATCGGCACTTG 349 363 31 Antisense
GGCTCCCGGCTTACGATTATGGATG 537 539 66 Antisense
GGATGCTCATTGCACTTGTTGGAGG 199 513 86 Antisense
TATGATTGTCATCGTGTGCTGCTTC 280 655 123 Antisense
GTGTGCTGCTTCATGAGAATCCGAA 641 487 136 Antisense
GAATCCGAATTCCACGTACAAAACG 478 329 152 Antisense
CGATCTGATTGCTGCGAAACGAAAA 23 249 183 Antisense
AGCCAATGCTCACAACGACGAACGT 365 83 237 Antisense
GAACGTGCTCAGGCAATCGTGATGA 91 349 256 Antisense
GAACTCAATGCCTTCTGGAGGTGGT 20 351 279 Antisense
CTCCGAGCACAAGCAGCTCACGTCA 33 235 311 Antisense
Sequence Source Affymetrix Proprietary Database