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[177335_at]

Description VC5.2 /REP_DB=WormBase Gene ID /WP=CE21223 /TR=Q9TYU4 /GB=AAC78210.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 86      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 97      6grp_total > 76      4grp_total > 02      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3940
1 2 3 4 range
A 539.3
(-3)
P 		560.4
(-3)
P 		566.3
(-3)
P 		4287.2
(3)
P 		3748
B 437.8
(-3)
P 		496.5
(-2.9)
P 		614.8
(-2.7)
P 		4377.8
(3)
P 		3940
C 560.6
(-3)
P 		568.1
(-3)
P 		596.4
(-2.9)
P 		3894.9
(3)
P 		3334
avr 512.6
(-3) 		541.7
(-3) 		592.5
(-2.9) 		4186.6
(3) 		3674

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1368
1 2 3 4 5 6 range
A 526
(-3)
P 		679.8
(-2.1)
P 		762.6
(-1.6)
P 		1134.4
(0.6)
P 		807.8
(-1.3)
P 		1549.6
(3)
P 		1024
B 688.2
(-3)
P 		721.3
(-2.8)
P 		976.4
(-1)
P 		960.1
(-1.1)
P 		967.1
(-1)
P 		1534.4
(3)
P 		846
C 597.6
(-3)
P 		781.3
(-2.1)
P 		681.8
(-2.6)
P 		1001.7
(-1.1)
P 		866.5
(-1.8)
P 		1893.7
(3)
P 		1296
avr 603.9
(-3) 		727.5
(-2.3) 		806.9
(-1.8) 		1032.1
(-0.6) 		880.5
(-1.4) 		1659.2
(3) 		1055
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 811
1 2 3 4 range
A 196.4
(-2.1)
P 		121.7
(-3)
P 		148.1
(-2.7)
P 		627.6
(3)
P 		506
B 139.6
(-2.9)
P 		122.6
(-3)
P 		142.5
(-2.9)
P 		932.9
(3)
P 		810
C 185.6
(-2.7)
P 		163.3
(-3)
P 		207.8
(-2.5)
P 		656.7
(3)
P 		493
avr 173.9
(-2.6) 		135.9
(-3) 		166.1
(-2.7) 		739.1
(3) 		603

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 537
1 2 3 4 5 6 range
A 97
(-3)
P 		241.8
(0.1)
P 		166.1
(-1.5)
P 		287.7
(1.1)
P 		243.8
(0.1)
P 		377.3
(3)
P 		280
B 239.5
(-3)
P 		240.1
(-2.9)
P 		237.1
(-3)
P 		254.3
(-2.7)
P 		392.9
(-0.2)
P 		572.2
(3)
P 		335
C 221.5
(-2.4)
P 		238.4
(-2.2)
P 		173.5
(-3)
P 		201.4
(-2.6)
P 		280.4
(-1.6)
P 		633.9
(3)
P 		460
avr 186
(-3) 		240.1
(-2.1) 		192.2
(-2.9) 		247.8
(-1.9) 		305.7
(-0.9) 		527.8
(3) 		342
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177335_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12247
Sequence Type Exemplar sequence
Representative Public ID VC5.2 NCBI
Target Description VC5.2 /REP_DB=WormBase Gene ID /WP=CE21223 /TR=Q9TYU4 /GB=AAC78210.1 /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_072396(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072396 NCBI Caenorhabditis elegans VC5.2 (VC5.2) mRNA, complete cds. 11/11 None
SNAP00000038537 ENSEMBL cdna:SNAP chromosome:CEL140:V:7088808:7091358:1 11/11 None
GENEFINDER00000038543 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7088625:7091358:1 11/11 None
VC5.2 ENSEMBL cdna:known chromosome:CEL140:V:7088548:7091440:1 gene:VC5.2 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:7088625-7091359(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl VC5.2
Entrez Gene 179097 Entrez gene
SwissProt Q9TYU4 EMBL-EBI
WormBase CE21223 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC78210 Hypothetical protein VC5.2 [Caenorhabditis elegans] ref|NP_504797.1| VC5.2 [Caenorhabditis elegans] 0.0
blast CAE72001 Hypothetical protein CBG19078 [Caenorhabditis briggsae] 0.0
blast CAB07706 Hypothetical protein ZC101.2a [Caenorhabditis elegans] emb|CAB07567.1| Hypothetical protein ZC101.2a [Caenorhabditis elegans] ref|NP_497046.1| UNCoordinated family member (unc-52) [Caenorhabditis elegans] 8.0E-22
blast CAB07706 Hypothetical protein ZC101.2a [Caenorhabditis elegans] emb|CAB07567.1| Hypothetical protein ZC101.2a [Caenorhabditis elegans] ref|NP_497046.1| UNCoordinated family member (unc-52) [Caenorhabditis elegans] 9.0E-22
Sequence
Target Sequence 
>C. ELEGANS:177335_AT
gaagccggagcattggcacatcagaaacgaattgaagaatcagtttcaatttgcaaaaga
atctaccttgactatgatggatcgtgtttctgtaatggtcgatccactatgtgcgatgag
aagacccatgtttgccaaaactgcaccggtggaacacttggcatccaatgcgaaaagtgt
ccagaagatctcagattagacaagactggcaaatgtgttccaggattggatcccgactgt
ttttgcaacagtcactcctatgaatgtaccgatggaatatgcacagactgtgagaataac
accactggtgatcattgcgaactttgtgatattgggttctatggagaccctacaatgggt
agaggctgcacaaaatgcccatgccccaaaaacggagaatgctcctataacactgtgaca
aatagaatcgaatgtaacgattgtccaaaaggacatattggagaaagatgtgaagatagt
gaatcctcgtatcagccatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCCGGAGCATTGGCACATCAGA 244 345 1234 Antisense
GATGGATCGTGTTTCTGTAATGGTC 287 407 1309 Antisense
AATGGTCGATCCACTATGTGCGATG 516 163 1327 Antisense
TGAGAAGACCCATGTTTGCCAAAAC 416 569 1350 Antisense
TGCACCGGTGGAACACTTGGCATCC 130 577 1375 Antisense
GTGTTCCAGGATTGGATCCCGACTG 197 485 1448 Antisense
GTTTTTGCAACAGTCACTCCTATGA 349 449 1472 Antisense
AGAGGCTGCACAAAATGCCCATGCC 690 67 1594 Antisense
ATGCCCATGCCCCAAAAACGGAGAA 399 41 1608 Antisense
GAGAATGCTCCTATAACACTGTGAC 571 391 1628 Antisense
ATAGTGAATCCTCGTATCAGCCATT 105 23 1709 Antisense
Sequence Source Affymetrix Proprietary Database