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[193766_s_at]

Description Y43F4A.2 /REP_DB=WormBase Gene ID /WP=CE16623 /TR=O45928 /GB=CAB16472.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Reverse transcriptase (RNA-dependent DNA polymerase)
Cluster 6grp_total > 55      4grp_total > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 3.4
(-3)
A 		3.5
(-2.8)
A 		7.1
(3)
A 		5.6
(0.6)
A 		4
B 3.9
(-2.3)
A 		3.5
(-2.7)
A 		3.2
(-3)
A 		9.5
(3)
A 		6
C 8.5
(-2.8)
A 		11.4
(-2.6)
A 		4.6
(-3)
A 		109.8
(3)
A 		105
avr 5.3
(-3) 		6.1
(-2.8) 		5
(-3) 		41.6
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 14.2
(3)
A 		7.1
(-0.9)
A 		9.9
(0.6)
A 		3.3
(-3)
A 		7.5
(-0.7)
A 		5.6
(-1.7)
A 		11
B 7.6
(-1.7)
A 		5.4
(-2.6)
A 		11.4
(-0.1)
A 		5.5
(-2.6)
A 		4.5
(-3)
A 		18.7
(3)
A 		14
C 10.7
(0.8)
A 		11.8
(1.5)
A 		13.2
(2.4)
A 		7.6
(-1.2)
A 		4.7
(-3)
A 		14.2
(3)
A 		10
avr 10.8
(1.4) 		8.1
(-0.9) 		11.5
(1.9) 		5.5
(-3) 		5.6
(-2.9) 		12.8
(3) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 1.2
(-0.8)
A 		0.8
(-3)
A 		1.9
(3)
A 		0.8
(-3)
A 		1
B 1.3
(-0.2)
A 		0.9
(-2.1)
A 		0.7
(-3)
A 		2
(3)
A 		1
C 2.8
(-2.6)
A 		3.3
(-2.4)
A 		1.6
(-3)
A 		18.5
(3)
A 		17
avr 1.8
(-2.6) 		1.7
(-2.7) 		1.4
(-3) 		7.1
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6
1 2 3 4 5 6 range
A 2.6
(3)
A 		2.5
(2.7)
A 		2.2
(1.7)
A 		0.8
(-3)
A 		2.3
(2)
A 		1.4
(-1)
A 		2
B 2.6
(-1.8)
A 		1.8
(-2.7)
A 		2.8
(-1.6)
A 		1.5
(-3)
A 		1.8
(-2.7)
A 		7
(3)
A 		6
C 4
(1.7)
A 		3.6
(0.9)
A 		3.4
(0.6)
A 		1.5
(-3)
A 		1.5
(-3)
A 		4.7
(3)
A 		3
avr 3.1
(0.5) 		2.6
(-0.5) 		2.8
(-0.1) 		1.3
(-3) 		1.9
(-1.8) 		4.4
(3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193766_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7982
Sequence Type Exemplar sequence
Representative Public ID Y43F4A.2 NCBI
Target Description Y43F4A.2 /REP_DB=WormBase Gene ID /WP=CE16623 /TR=O45928 /GB=CAB16472.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Reverse transcriptase (RNA-dependent DNA polymerase)
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_072872(11), NM_072888(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072872 NCBI Caenorhabditis elegans F07B7.6 (F07B7.6) mRNA, complete cds. 11/11 A 
NM_072888 NCBI Caenorhabditis elegans K06C4.14 (K06C4.14) mRNA, complete cds. 11/11 None
SNAP00000026848 ENSEMBL cdna:SNAP chromosome:CEL140:III:13229603:13233838:-1 11/11 None
GENEFINDER00000026853 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13229603:13240406:-1 11/11 None
SNAP00000015089 ENSEMBL cdna:SNAP chromosome:CEL140:V:8845045:8847426:1 11/11 None
GENEFINDER00000015144 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8845123:8847426:1 11/11 None
SNAP00000018180 ENSEMBL cdna:SNAP chromosome:CEL140:V:8887140:8889521:1 11/11 None
GENEFINDER00000018204 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8887218:8889521:1 11/11 None
F07B7.6 ENSEMBL cdna:known chromosome:CEL140:V:8840139:8847426:1 gene:F07B7.6 11/11 A 
K06C4.14 ENSEMBL cdna:known chromosome:CEL140:V:8887140:8889521:1 gene:K06C4.14 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000022146 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title

Ensembl F07B7.6
K06C4.14
Entrez Gene 184114 Entrez gene
187066 Entrez gene
SwissProt Q965Z1 EMBL-EBI
Q9GYH5 EMBL-EBI
WormBase CE26802 Wormbase
CE11824 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6310 DNA recombination inferred from electronic annotation QuickGO AmiGO
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
4190 aspartic-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK84515 Hypothetical protein F07B7.6 [Caenorhabditis elegans] ref|NP_505273.1| F07B7.6 [Caenorhabditis elegans] 0.0
blast T27790 hypothetical protein ZK228.2 - Caenorhabditis elegans 0.0
blast T26836 hypothetical protein Y43F4A.2 - Caenorhabditis elegans 0.0
blast AAF98218 Hypothetical protein K06C4.14 [Caenorhabditis elegans] ref|NP_505289.1| K06C4.14 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 5.0E-19
Pfam IPR008042 EMBL-EBI Retrotransposon, Pao 2.4E-88
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 0.036
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.1E-8
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.6E-19
Pfam IPR008042 EMBL-EBI Retrotransposon, Pao 8.0E-101
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 0.0034
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.6E-19
Pfam IPR008042 EMBL-EBI Retrotransposon, Pao 8.0E-101
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 0.0034
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 5.0E-19
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 5.0E-19
Sequence
Target Sequence 
>C. ELEGANS:193766_S_AT
ggatatggacagtcttcctgatacggaaaatcgggaagatggtcaagagtgtttgatgga
tgcaggaatgaccgttcaacatccgtcggctccccctttgactattccatccgctgccct
ttttgactcacccgacgaacattactctccggagctttttcctcgtgagacttgcccaaa
cgtaactgaagctactgagaacccttcaccaaaaattcaaaataataccatgatcccctt
agtccccaatacttctactattcaaaacgcccgcttagatttacacgaaagggtaggaga
agtagataatttcgaaaaccccgacttagaccaagtccacgttgacagtaaggacgaagt
tgagtaccaggacccgagcacaaccgaggaattgcccacagcaattcctggtcgctcaag
acctattctaccacgaagggtcaagaagcctgtgtactacaactacttccttcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATATGGACAGTCTTCCTGATACG 52 511 6450 Antisense
GAACATTACTCTCCGGAGCTTTTTC 143 351 6586 Antisense
TTTTTCCTCGTGAGACTTGCCCAAA 569 673 6605 Antisense
AAATAATACCATGATCCCCTTAGTC 282 117 6669 Antisense
CCTTAGTCCCCAATACTTCTACTAT 56 267 6686 Antisense
TACTTCTACTATTCAAAACGCCCGC 563 643 6699 Antisense
CAAAACGCCCGCTTAGATTTACACG 153 191 6712 Antisense
GAAGTTGAGTACCAGGACCCGAGCA 517 337 6805 Antisense
GACCCGAGCACAACCGAGGAATTGC 108 383 6820 Antisense
AGCAATTCCTGGTCGCTCAAGACCT 521 75 6849 Antisense
TGTGTACTACAACTACTTCCTTCAC 396 553 6900 Antisense
Sequence Source Affymetrix Proprietary Database