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[187026_s_at]

Description Y39A3CL.6 /REP_DB=WormBase Gene ID /WP=CE21657 /TR=Q9N413 /GB=AAF60517.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 01      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 31      6grp_total > 33      4grp_total > 05      6grp_cgc > 20      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1356
1 2 3 4 range
A 1000.9
(-0.7)
P 		504.4
(-3)
P 		795.6
(-1.6)
P 		1777.3
(3)
P 		1273
B 970.3
(-0.6)
P 		818.8
(-1.2)
P 		421.2
(-3)
P 		1772.4
(3)
P 		1351
C 1071.1
(0.8)
P 		557.8
(-2.8)
P 		532.9
(-3)
P 		1379.7
(3)
P 		847
avr 1014.1
(-0.6) 		627
(-2.8) 		583.2
(-3) 		1643.1
(3) 		1060

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 619
1 2 3 4 5 6 range
A 1156.9
(3)
P 		777.6
(-0.7)
P 		992.9
(1.4)
P 		730.4
(-1.2)
P 		764.8
(-0.8)
P 		542.3
(-3)
P 		615
B 1160.8
(3)
P 		886.7
(-0)
P 		1073.4
(2)
P 		760.1
(-1.4)
P 		822.9
(-0.7)
P 		616.2
(-3)
P 		545
C 890.1
(2)
P 		958.6
(3)
P 		837.3
(1.2)
P 		887.6
(1.9)
P 		555.3
(-3)
P 		734.7
(-0.3)
P 		403
avr 1069.3
(3) 		874.3
(0.3) 		967.9
(1.6) 		792.7
(-0.8) 		714.3
(-1.9) 		631.1
(-3) 		438
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 280
1 2 3 4 range
A 364.4
(3)
P 		109.5
(-3)
P 		208
(-0.7)
P 		260.2
(0.5)
P 		255
B 309.4
(1.5)
P 		202.2
(-0.8)
P 		97.6
(-3)
P 		377.7
(3)
P 		280
C 354.6
(3)
P 		160.4
(-3)
P 		185.7
(-2.2)
P 		232.6
(-0.8)
P 		194
avr 342.8
(3) 		157.4
(-3) 		163.8
(-2.8) 		290.2
(1.3) 		185

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 272
1 2 3 4 5 6 range
A 213.3
(0.4)
P 		276.6
(3)
P 		216.2
(0.5)
P 		185.2
(-0.8)
P 		230.8
(1.1)
P 		132
(-3)
P 		145
B 403.9
(3)
P 		295.1
(-0.2)
P 		260.7
(-1.2)
P 		201.3
(-3)
P 		334.3
(0.9)
P 		229.8
(-2.2)
P 		203
C 329.9
(3)
P 		292.5
(1.5)
P 		213.1
(-1.6)
P 		178.5
(-3)
P 		179.7
(-3)
P 		246
(-0.3)
P 		151
avr 315.7
(3) 		288.1
(1.7) 		230
(-1) 		188.3
(-3) 		248.3
(-0.2) 		202.6
(-2.3) 		127
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187026_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8243
Sequence Type Exemplar sequence
Representative Public ID Y39A3CL.6 NCBI
Target Description Y39A3CL.6 /REP_DB=WormBase Gene ID /WP=CE21657 /TR=Q9N413 /GB=AAF60517.1 /SUBMIT=ST.LOUIS /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_065060(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065060 NCBI Caenorhabditis elegans PDGF/VEGF growth factor related family member (pvf-1) (pvf-1) mRNA, complete cds. 11/11 None
GENEFINDER00000009093 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1821189:1823748:-1 11/11 None
Y39A3CL.6 ENSEMBL cdna:known chromosome:CEL140:III:1821189:1824103:-1 gene:Y39A3CL.6 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
chrIII:1821188-1824047(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pvf-1
Ensembl Y39A3CL.6
Entrez Gene 175327 Entrez gene
SwissProt Q9N413 EMBL-EBI
WormBase CE21657 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8083 growth factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF60517 Pdgf/vegf growth factor related protein 1 [Caenorhabditis elegans] ref|NP_497461.1| PDGF/VEGF growth factor related family member (pvf-1) [Caenorhabditis elegans] 1.0E-168
blast AAF60517 Pdgf/vegf growth factor related protein 1 [Caenorhabditis elegans] ref|NP_497461.1| PDGF/VEGF growth factor related family member (pvf-1) [Caenorhabditis elegans] 1.0E-147
blast CAE69111 Hypothetical protein CBG15137 [Caenorhabditis briggsae] 1.0E-126
blast CAE69111 Hypothetical protein CBG15137 [Caenorhabditis briggsae] 1.0E-125
blast XP_392204 PREDICTED: similar to CG7103-PA [Apis mellifera] 2.0E-16
Sequence
Target Sequence 
>C. ELEGANS:187026_S_AT
cagtctgtgttccgattccacaactgtccgacgatccacaggtgttaatgtacccaaaat
gctatgaggtgaaacagtgcgtaggaagctgctgtaactctgtggagacctgtcatcccg
gaacaattaatttggtgaagaaacacgtcgccgagctactttacatcggaaacgggagat
tcatgttcaatatgacaaaggaaatcacaatggaggagcatacctcgtgttcgtgctttg
attgcggttctaatactccacaatgtgcaccgggcttcgtggttggtagatcatgcacct
gtgagtgcgcgaacaaagaggaacgcaataattgtgtaggcaacgccacgtggaacgcgg
agacttgcaaatgtgaatgtgacctgaaatgtgaagaggggaaaattttacacaaggatc
ggtgtgattgcgtgagacgcagacaacatcatgggggaccgaggggacatcatgggcacc
gtcatcatcaccgttcgagacctatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGTCTGTGTTCCGATTCCACAACT 659 207 365 Antisense
AACTGTCCGACGATCCACAGGTGTT 99 141 386 Antisense
GAAGCTGCTGTAACTCTGTGGAGAC 428 343 449 Antisense
AGACCTGTCATCCCGGAACAATTAA 138 69 470 Antisense
GTCGCCGAGCTACTTTACATCGGAA 186 475 511 Antisense
GGAGGAGCATACCTCGTGTTCGTGC 659 515 576 Antisense
GTGTTCGTGCTTTGATTGCGGTTCT 393 485 591 Antisense
CCACAATGTGCACCGGGCTTCGTGG 447 275 622 Antisense
GGGCTTCGTGGTTGGTAGATCATGC 309 493 636 Antisense
GCAACGCCACGTGGAACGCGGAGAC 421 319 704 Antisense
TCATCATCACCGTTCGAGACCTATT 565 619 846 Antisense
Sequence Source Affymetrix Proprietary Database