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[183343_at]

Description C39F7.1 /REP_DB=WormBase Gene ID /WP=CE16904 /TR=Q9UAQ5 /GB=AAC69215.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 05      4grp_total > 28      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 130.5
(1.7)
P 		136.6
(3)
A 		108.1
(-3)
A 		131.3
(1.9)
A 		29
B 110.1
(-1.1)
P 		115.2
(-0.7)
M 		83
(-3)
A 		166.9
(3)
A 		84
C 107.5
(-1.5)
A 		150.2
(3)
A 		92.8
(-3)
A 		93.8
(-2.9)
A 		57
avr 116
(0.3) 		134
(3) 		94.6
(-3) 		130.7
(2.5) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 132.7
(2.8)
P 		135
(3)
P 		132.4
(2.8)
P 		101.9
(-0.1)
P 		77.3
(-2.3)
P 		69.9
(-3)
A 		65
B 135
(3)
P 		123.8
(2.1)
P 		88.6
(-0.6)
A 		88.2
(-0.6)
P 		122
(2)
P 		56.7
(-3)
A 		78
C 123.3
(3)
P 		107.4
(1.8)
P 		57.8
(-2.1)
A 		58.3
(-2.1)
A 		70.6
(-1.1)
P 		46.5
(-3)
A 		77
avr 130.3
(3) 		122.1
(2.3) 		92.9
(-0.1) 		82.8
(-0.9) 		90
(-0.3) 		57.7
(-3) 		73
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 47.5
(3)
P 		29.7
(-0.8)
A 		28.3
(-1.1)
A 		19.2
(-3)
A 		28
B 35.1
(2.8)
P 		28.5
(0.4)
M 		19.2
(-3)
A 		35.6
(3)
A 		16
C 35.6
(1.3)
A 		43.2
(3)
A 		32.4
(0.6)
A 		15.8
(-3)
A 		27
avr 39.4
(3) 		33.8
(0.9) 		26.6
(-1.8) 		23.5
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 24.5
(-1.5)
P 		48
(3)
P 		28.8
(-0.7)
P 		25.8
(-1.3)
P 		23.3
(-1.8)
P 		17
(-3)
A 		31
B 47
(2.5)
P 		41.2
(1.2)
P 		21.5
(-2.9)
A 		23.4
(-2.5)
P 		49.6
(3)
P 		21.1
(-3)
A 		29
C 45.7
(3)
P 		32.8
(0.7)
P 		14.7
(-2.5)
A 		11.7
(-3)
A 		22.8
(-1)
P 		15.6
(-2.3)
A 		34
avr 39.1
(2.6) 		40.7
(3) 		21.7
(-2) 		20.3
(-2.4) 		31.9
(0.7) 		17.9
(-3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183343_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15359
Sequence Type Exemplar sequence
Representative Public ID C39F7.1 NCBI
Target Description C39F7.1 /REP_DB=WormBase Gene ID /WP=CE16904 /TR=Q9UAQ5 /GB=AAC69215.1 /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_070995(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070995 NCBI Caenorhabditis elegans C39F7.1 (C39F7.1) mRNA, complete cds. 11/11 None
SNAP00000004832 ENSEMBL cdna:SNAP chromosome:CEL140:V:1252739:1262417:1 11/11 None
GENEFINDER00000004836 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1256477:1262350:1 10/11 None
C39F7.1 ENSEMBL cdna:known chromosome:CEL140:V:1259939:1262417:1 gene:C39F7.1 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
chrV:1259938-1262417(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C39F7.1
Entrez Gene 183348 Entrez gene
SwissProt Q9UAQ5 EMBL-EBI
WormBase CE16904 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC69215 Hypothetical protein C39F7.1 [Caenorhabditis elegans] ref|NP_503396.1| C39F7.1 [Caenorhabditis elegans] 1.0E-159
blast AAC69215 Hypothetical protein C39F7.1 [Caenorhabditis elegans] ref|NP_503396.1| C39F7.1 [Caenorhabditis elegans] 1.0E-153
blast AAC69215 Hypothetical protein C39F7.1 [Caenorhabditis elegans] ref|NP_503396.1| C39F7.1 [Caenorhabditis elegans] 1.0E-130
blast CAE58009 Hypothetical protein CBG01078 [Caenorhabditis briggsae] 3.0E-94
blast CAE58009 Hypothetical protein CBG01078 [Caenorhabditis briggsae] 4.0E-92
blast CAE58009 Hypothetical protein CBG01078 [Caenorhabditis briggsae] 1.0E-89
blast AAK68515 Hypothetical protein Y54B9A.1 [Caenorhabditis elegans] ref|NP_505440.1| Y54B9A.1 [Caenorhabditis elegans] 3.0E-22
Protein Domains
Database ID Description E-Value
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 2.6E-7
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 0.0020
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 2.2E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503396.1 1 267-289
C39F7.1 1 267-289
SNAP00000004832 1 239-261
Sequence
Target Sequence 
>C. ELEGANS:183343_AT
cctgccacgtctattctgacgacgagtgccggtaacgacaacagcatctacgtttcaacg
gatgcaaagatctggacaagtcaagagatccgagccaccgtcgaggactgtgactttgca
tccggaaacatgtggttctacatcggagctccacgaagttccgacgaacttttcgaaaat
gtaatcgatccactgttgcagtggaatcgtgcaccatctggcagtggtgaacttattggg
agtgccgaagacgcgttggcactgctgcattggaatgctgcaggagaagtcgccgtgctt
ggagctcgagagctgaagaagttggctagccgtctcgggattgttatcgagaatgaagac
gcgatggttatcgactgtctcgaggaggacttctcttccaatgccgccaccgccacatcc
tcggacgaaccagaggtgccacgtagaattccgatattcgatatgttctgggtcggcatc
gcgttaatta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTGCCACGTCTATTCTGACGACGA 710 265 364 Antisense
GACGAGTGCCGGTAACGACAACAGC 476 377 384 Antisense
ACAAGTCAAGAGATCCGAGCCACCG 390 113 439 Antisense
CGAGGACTGTGACTTTGCATCCGGA 289 249 465 Antisense
GTTCTACATCGGAGCTCCACGAAGT 185 437 498 Antisense
AAATGTAATCGATCCACTGTTGCAG 542 117 540 Antisense
GCAGTGGAATCGTGCACCATCTGGC 365 311 561 Antisense
GCGTTGGCACTGCTGCATTGGAATG 474 291 616 Antisense
GGCTAGCCGTCTCGGGATTGTTATC 120 539 687 Antisense
TCGAGGAGGACTTCTCTTCCAATGC 389 601 743 Antisense
TTCTGGGTCGGCATCGCGTTAATTA 19 613 829 Antisense
Sequence Source Affymetrix Proprietary Database