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[191769_at] Retroviral aspartyl proteases

Description K03D3.8 /REP_DB=WormBase Gene ID /WP=CE16214 /TR=O45646 /GB=CAB05245.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Retroviral aspartyl proteases
Cluster 6grp_total > 27      4grp_total > 09      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 35.1
(-3)
A 		35.4
(-3)
A 		74.6
(1.2)
A 		91.7
(3)
M 		57
B 45.9
(-1.3)
A 		25
(-3)
A 		48.2
(-1.1)
A 		100.1
(3)
A 		75
C 32.1
(-1.3)
A 		75.4
(2.8)
A 		13.6
(-3)
A 		78
(3)
A 		64
avr 37.7
(-3) 		45.3
(-2.1) 		45.5
(-2.1) 		89.9
(3) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 77
1 2 3 4 5 6 range
A 81.3
(3)
A 		12.2
(-2.4)
A 		12.1
(-2.5)
A 		24.6
(-1.5)
A 		5.2
(-3)
A 		18.2
(-2)
A 		76
B 14.8
(-1.8)
A 		12.4
(-2.1)
A 		11.3
(-2.2)
A 		4.8
(-3)
A 		11.4
(-2.2)
A 		54.2
(3)
A 		49
C 53.6
(3)
A 		52.6
(2.9)
A 		29.8
(0.1)
A 		10.5
(-2.2)
A 		4.1
(-3)
A 		15.7
(-1.6)
A 		50
avr 49.9
(3) 		25.7
(-0.4) 		17.7
(-1.5) 		13.3
(-2.1) 		6.9
(-3) 		29.4
(0.1) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 12.8
(-0.4)
A 		7.7
(-3)
A 		19.5
(3)
A 		13.4
(-0.1)
M 		12
B 14.6
(0.3)
A 		6.2
(-3)
A 		11.2
(-1)
A 		21.3
(3)
A 		15
C 10.6
(-0.9)
A 		21.7
(3)
A 		4.7
(-3)
A 		13.2
(0)
A 		17
avr 12.7
(-1.7) 		11.9
(-2.9) 		11.8
(-3) 		16
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 15
(3)
A 		4.3
(-1.8)
A 		2.6
(-2.6)
A 		6.2
(-0.9)
A 		1.6
(-3)
A 		4.4
(-1.7)
A 		13
B 5.1
(-1.8)
A 		4.1
(-2.1)
A 		2.7
(-2.6)
A 		1.3
(-3)
A 		4.6
(-2)
A 		20.2
(3)
A 		19
C 19.9
(3)
A 		16.1
(1.8)
A 		7.6
(-1)
A 		2.1
(-2.7)
A 		1.3
(-3)
A 		5.2
(-1.7)
A 		19
avr 13.3
(3) 		8.2
(0.2) 		4.3
(-2) 		3.2
(-2.6) 		2.5
(-3) 		9.9
(1.1) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191769_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9973
Sequence Type Exemplar sequence
Representative Public ID K03D3.8 NCBI
Target Description K03D3.8 /REP_DB=WormBase Gene ID /WP=CE16214 /TR=O45646 /GB=CAB05245.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Retroviral aspartyl proteases
Cluster Evidence This cluster is supported by a 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_070538(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070538 NCBI Caenorhabditis elegans K03D3.8 (K03D3.8) mRNA, complete cds. 11/11 None
SNAP00000040346 ENSEMBL cdna:SNAP chromosome:CEL140:IV:16313124:16315807:1 11/11 None
K03D3.8 ENSEMBL cdna:known chromosome:CEL140:IV:16313124:16315807:1 gene:K03D3.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000040354 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:16313129-16315813(+) 79.81 100.0
Public Domain and Genome References
Gene Title Retroviral aspartyl proteases
Ensembl K03D3.8
Entrez Gene 186938 Entrez gene
SwissProt O45646 EMBL-EBI
WormBase CE16214 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05245 Hypothetical protein K03D3.8 [Caenorhabditis elegans] ref|NP_502939.1| K03D3.8 [Caenorhabditis elegans] 0.0
blast AAF99964 Hypothetical protein F49F1.8 [Caenorhabditis elegans] ref|NP_500489.2| F49F1.8 [Caenorhabditis elegans] 5.0E-82
blast AAF99964 Hypothetical protein F49F1.8 [Caenorhabditis elegans] ref|NP_500489.2| F49F1.8 [Caenorhabditis elegans] 6.0E-82
blast CAA20985 Hypothetical protein Y38H6C.5 [Caenorhabditis elegans] ref|NP_507948.1| Y38H6C.5 [Caenorhabditis elegans] 2.0E-57
blast CAA20985 Hypothetical protein Y38H6C.5 [Caenorhabditis elegans] ref|NP_507948.1| Y38H6C.5 [Caenorhabditis elegans] 2.0E-55
Protein Domains
Database ID Description E-Value
Pfam IPR005162 EMBL-EBI Retrotransposon gag protein 2.4E-19
Sequence
Target Sequence 
>C. ELEGANS:191769_AT
gcgaatggcatccatgccgttgcattagttgatacaggagcaggtatcacgttaacttct
aaaaatatcctacaaaggttaggaattacaaagtttagtccttcaaacatcgatggcgcc
gttggtttcggaggaaacaagatcccgttagccggatcagccatcataaatttgcaggtg
ggatcaagaagaatccttcaaaaagtttattgtaatgataacgattacaccgaagaagat
tttcaattcgtgtttggaaatgatttgttatctcgtttaccaatgttctcgttcgactat
caaaaagaagttttccatctcggaaaggacatgattccgttttatcgctctgaagaaaca
ttgagtcaaaatattaaacgcagagttgactgctgtccatcaatcgtgttaagaacccat
cttcaaccaaattcatccattccgagcgatccaatcaaagaagaaggatctgctgtagaa
aagtcaaggaagattctgacccagaggtcgttcaacctccaggagtacccaagccaagca
gcagttgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAATGGCATCCATGCCGTTGCAT 139 289 1276 Antisense
GGAGCAGGTATCACGTTAACTTCTA 370 519 1312 Antisense
AAACATCGATGGCGCCGTTGGTTTC 454 123 1380 Antisense
AGATCCCGTTAGCCGGATCAGCCAT 618 65 1415 Antisense
ATCTCGTTTACCAATGTTCTCGTTC 615 29 1545 Antisense
GACATGATTCCGTTTTATCGCTCTG 648 369 1603 Antisense
TGACTGCTGTCCATCAATCGTGTTA 314 569 1662 Antisense
GAACCCATCTTCAACCAAATTCATC 443 345 1688 Antisense
ACCAAATTCATCCATTCCGAGCGAT 38 85 1701 Antisense
GTTCAACCTCCAGGAGTACCCAAGC 551 443 1785 Antisense
GTACCCAAGCCAAGCAGCAGTTGTG 44 457 1800 Antisense
Sequence Source Affymetrix Proprietary Database