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[177317_at]

Description VC5.3 /REP_DB=WormBase Gene ID /WP=CE21224 /TR=Q9TYU6 /GB=AAC78208.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 30      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 26      6grp_total > 53      4grp_total > 60      6grp_highest_sub > 03      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4194
1 2 3 4 range
A 5410.4
(1.5)
P 		4457.8
(0)
P 		6387.4
(3)
P 		2474.4
(-3)
P 		3913
B 5499.7
(1.1)
P 		4682
(-0.6)
P 		6450.1
(3)
P 		3516.3
(-3)
P 		2934
C 5309.7
(1)
P 		4363.8
(-0.4)
P 		6668.8
(3)
P 		2596.2
(-3)
P 		4073
avr 5406.6
(1.2) 		4501.2
(-0.3) 		6502.1
(3) 		2862.3
(-3) 		3640

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4414
1 2 3 4 5 6 range
A 4395
(-1.4)
P 		6007.5
(3)
P 		5931.3
(2.8)
P 		6000.4
(3)
P 		3816.1
(-3)
P 		5183.7
(0.7)
P 		2191
B 5392.6
(-0.1)
P 		5086.4
(-0.6)
P 		7221.7
(3)
P 		5190.7
(-0.5)
P 		3693.4
(-3)
P 		4568.1
(-1.5)
P 		3528
C 5924.1
(-0.7)
P 		5238.4
(-1.9)
P 		8107.1
(3)
P 		5051.1
(-2.2)
P 		4558.8
(-3)
P 		5034.1
(-2.2)
P 		3548
avr 5237.2
(-0.6) 		5444.1
(-0.2) 		7086.7
(3) 		5414.1
(-0.3) 		4022.8
(-3) 		4928.6
(-1.2) 		3064
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1962
1 2 3 4 range
A 1969.9
(3)
P 		967.7
(-0.7)
P 		1669.8
(1.9)
P 		362.2
(-3)
P 		1608
B 1753.8
(3)
P 		1156.4
(-0.6)
P 		1494.6
(1.5)
P 		749.3
(-3)
P 		1005
C 1757.7
(1.2)
P 		1254.6
(-0.4)
P 		2324.3
(3)
P 		437.8
(-3)
P 		1887
avr 1827.1
(3) 		1126.2
(-0.2) 		1829.6
(3) 		516.4
(-3) 		1313

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1386
1 2 3 4 5 6 range
A 810.2
(-3)
P 		2136.6
(3)
P 		1291.7
(-0.8)
P 		1521.9
(0.2)
P 		1151.5
(-1.5)
P 		1262.1
(-1)
P 		1326
B 1876.3
(3)
P 		1693.1
(0.8)
P 		1753.6
(1.5)
P 		1374.8
(-3)
P 		1500.6
(-1.5)
P 		1703.4
(0.9)
P 		502
C 2195.8
(3)
P 		1598.4
(-0)
P 		2063.4
(2.3)
P 		1015.8
(-3)
P 		1475.2
(-0.7)
P 		1685.2
(0.4)
P 		1180
avr 1627.4
(0.8) 		1809.4
(3) 		1702.9
(1.7) 		1304.2
(-3) 		1375.8
(-2.1) 		1550.2
(-0.1) 		505
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177317_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12007
Sequence Type Exemplar sequence
Representative Public ID VC5.3 NCBI
Target Description VC5.3 /REP_DB=WormBase Gene ID /WP=CE21224 /TR=Q9TYU6 /GB=AAC78208.1 /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_072394(11), NM_001029006(11), NM_182438(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072394 NCBI Caenorhabditis elegans Nematode Polyprotein Allergen related family member (npa-1) (npa-1) mRNA, complete cds. 11/11 None
NM_001029006 NCBI Caenorhabditis elegans Nematode Polyprotein Allergen related family member (npa-1) (npa-1) mRNA, complete cds. 11/11 None
NM_182438 NCBI Caenorhabditis elegans Nematode Polyprotein Allergen related family member (npa-1) (npa-1) mRNA, complete cds. 11/11 None
SNAP00000038535 ENSEMBL cdna:SNAP chromosome:CEL140:V:7079088:7084047:1 11/11 None
GENEFINDER00000038545 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7078554:7084047:1 11/11 None
VC5.3a ENSEMBL cdna:known chromosome:CEL140:V:7078528:7084151:1 gene:VC5.3 11/11 None
VC5.3c ENSEMBL cdna:known chromosome:CEL140:V:7078930:7084047:1 gene:VC5.3 11/11 None
VC5.3b.2 ENSEMBL cdna:known chromosome:CEL140:V:7081861:7084047:1 gene:VC5.3 11/11 None
VC5.3b.1 ENSEMBL cdna:known chromosome:CEL140:V:7081864:7084107:1 gene:VC5.3 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:7078554-7084048(+) 100.0 100.0
Public Domain and Genome References
Ensembl VC5.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC78208 Nematode polyprotein allergen related protein 1, isoform a [Caenorhabditis elegans] ref|NP_504795.1| Nematode Polyprotein Allergen related family member (npa-1) [Caenorhabditis elegans] gb|AAR89637.1| nematode polyprotein allergen related, post-translationnally cleaved, the diverse 14.5 kDa cleavage products bind lipids and retinol (164.6 kD) (npa-1) [Caenorhabditis elegans] 0.0
blast AAR25643 Nematode polyprotein allergen related protein 1, isoform c [Caenorhabditis elegans] ref|NP_001024177.1| Nematode Polyprotein Allergen related family member (npa-1) [Caenorhabditis elegans] 0.0
blast AAD01632 ladder protein [Caenorhabditis elegans] 0.0
blast AAO25985 Nematode polyprotein allergen related protein 1, isoform b [Caenorhabditis elegans] ref|NP_872238.1| Nematode Polyprotein Allergen related family member (npa-1) [Caenorhabditis elegans] 0.0
blast AAR89638 nematode polyprotein allergen related, post-translationnally cleaved, the diverse 14.5 kDa cleavage products bind lipids and retinol (51.7 kD) (npa-1) [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:177317_AT
gaaattgcacgctgccgaagacttcaacacattgaagctgaagcttgtagaactggaaga
gcgccttacagagaatcagaagcatacaattgagcacgtgagaggagtctgctatagact
ttggggaatcaagaatcttgccagaagacgtcgtgttccaaactcagaagcttcattcca
agagaaagcggccaagtatttggattggatgaacgaagaacaattgaacgaattgaagag
attgaaaagtgagggaaagaagtccgaggtgatgaaggccattctaaagttctacgatga
aacaaccggagatgccaaggagaaggccgagggcaagttgaaagaagcttgtaaggagta
ttcggttaaggctttcggagaggagaaggtggctcaattcaaggctcaatacaaaaaatt
gaaggatgaaaatgcggaacagtccgagattgagaagttgtccaatcaatacattgacga
gattgaggatgaacagaagaaggactttgcaaaggctgttgtcactggctgcaagcatgt
ctacgcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATTGCACGCTGCCGAAGACTTC 22 365 3726 Antisense
GAAGAGCGCCTTACAGAGAATCAGA 481 339 3781 Antisense
GAATCTTGCCAGAAGACGTCGTGTT 10 329 3858 Antisense
GACGTCGTGTTCCAAACTCAGAAGC 602 377 3872 Antisense
AACTCAGAAGCTTCATTCCAAGAGA 370 141 3886 Antisense
GAAGTCCGAGGTGATGAAGGCCATT 63 333 3984 Antisense
GAAGGCCATTCTAAAGTTCTACGAT 333 333 3999 Antisense
GAGTATTCGGTTAAGGCTTTCGGAG 314 397 4081 Antisense
AAGGTGGCTCAATTCAAGGCTCAAT 639 159 4111 Antisense
GCAAAGGCTGTTGTCACTGGCTGCA 604 317 4234 Antisense
ACTGGCTGCAAGCATGTCTACGCCT 282 95 4249 Antisense
Sequence Source Affymetrix Proprietary Database