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[190342_s_at]

Description F38E9.3 /REP_DB=WormBase Gene ID /WP=CE07199 /TR=Q20175 /GB=AAA93347.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse-transcriptase
Cluster 6grp_total > 70      4grp_total > 34      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 10.9
(-3)
A 		62.5
(3)
A 		29.6
(-0.8)
A 		46.8
(1.2)
A 		52
B 32
(-3)
A 		64
(3)
A 		32.5
(-2.9)
A 		43.3
(-0.9)
A 		32
C 27.6
(-1.6)
A 		37.2
(3)
A 		24.8
(-3)
A 		29.6
(-0.7)
A 		12
avr 23.5
(-3) 		54.6
(3) 		29
(-1.9) 		39.9
(0.2) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 14
(-3)
A 		16.6
(-2.7)
A 		42.3
(0.7)
A 		60.3
(3)
A 		32.5
(-0.6)
A 		27.8
(-1.2)
A 		46
B 17.1
(0.9)
A 		15.3
(0.4)
A 		4.1
(-3)
A 		16.7
(0.8)
A 		6.7
(-2.2)
A 		24
(3)
A 		20
C 43.3
(3)
A 		42.7
(2.9)
A 		39
(2.1)
A 		42.5
(2.8)
A 		19
(-2.3)
A 		15.6
(-3)
A 		28
avr 24.8
(-1.4) 		24.9
(-1.4) 		28.5
(-0.3) 		39.8
(3) 		19.4
(-3) 		22.5
(-2.1) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 4
(-3)
A 		13.6
(3)
A 		7.7
(-0.7)
A 		6.9
(-1.2)
A 		10
B 10.2
(-1)
A 		15.8
(3)
A 		7.5
(-3)
A 		9.2
(-1.8)
A 		8
C 9.1
(1.3)
A 		10.7
(3)
A 		8.7
(0.9)
A 		5
(-3)
A 		6
avr 7.8
(-2.3) 		13.4
(3) 		8
(-2.1) 		7
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 2.6
(-3)
A 		5.9
(-1.4)
A 		9.2
(0.1)
A 		15.3
(3)
A 		9.8
(0.4)
A 		6.8
(-1)
A 		13
B 5.9
(0.7)
A 		5.1
(0.1)
A 		1
(-3)
A 		4.4
(-0.4)
A 		2.7
(-1.7)
A 		8.9
(3)
A 		8
C 16.1
(3)
A 		13
(1.3)
A 		9.9
(-0.4)
A 		8.5
(-1.2)
A 		6.1
(-2.5)
A 		5.2
(-3)
A 		11
avr 8.2
(0.7) 		8
(0.4) 		6.7
(-2.1) 		9.4
(3) 		6.2
(-3) 		7
(-1.5) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190342_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17809
Sequence Type Exemplar sequence
Representative Public ID F38E9.3 NCBI
Target Description F38E9.3 /REP_DB=WormBase Gene ID /WP=CE07199 /TR=Q20175 /GB=AAA93347.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse-transcriptase
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_078270(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078270 NCBI Caenorhabditis elegans F38E9.3 (reverse-transcriptase) mRNA, complete cds. 11/11 A 
SNAP00000018446 ENSEMBL cdna:SNAP chromosome:CEL140:IV:16241792:16243810:1 11/11 None
GENEFINDER00000018447 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:16242071:16243810:1 11/11 None
SNAP00000032043 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6343657:6346548:-1 11/11 None
GENEFINDER00000032101 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6343657:6346548:-1 11/11 None
SNAP00000030337 ENSEMBL cdna:SNAP chromosome:CEL140:X:16452846:16455744:1 11/11 None
GENEFINDER00000030348 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16453126:16455744:1 11/11 None
F38E9.3 ENSEMBL cdna:known chromosome:CEL140:X:16452738:16455744:1 gene:F38E9.3 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Ensembl F38E9.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_510671 F38E9.3 [Caenorhabditis elegans] 0.0
blast NP_508294 H02F09.4 [Caenorhabditis elegans] 0.0
blast T25782 hypothetical protein F47D2.2 - Caenorhabditis elegans 0.0
blast NP_501072 B0478.2 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 9.1E-24
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.8E-84
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 4.8E-20
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.7E-47
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 9.2E-80
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 2.2E-24
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.7E-82
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 9.1E-24
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.8E-84
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 1.2E-15
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.8E-84
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510671.1 1 109-131
F38E9.3 1 109-131
SNAP00000030337 1 73-95
Sequence
Target Sequence 
>C. ELEGANS:190342_S_AT
aatggtatcatcatcgctaagaagaaatcagtgaaggatctcggcatattcgttgacgac
aaactaaatttccacggccacatcacttatctcacaaatgcagctctactcaaatgccgg
caactcctcaaggcttttcgctcaactaatgccagcctatacttcaagctgtacaatatt
tatgttcaaccaatactcgattatggatgcgaaatctatagtcccacctcgggggctcta
atcaaacaactggaaaagcctctccgtttct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGGTATCATCATCGCTAAGAAGA 324 163 2284 Antisense
GAAATCAGTGAAGGATCTCGGCATA 553 357 2307 Antisense
GGATCTCGGCATATTCGTTGACGAC 54 513 2319 Antisense
AAACTAAATTTCCACGGCCACATCA 630 125 2344 Antisense
AATGCCAGCCTATACTTCAAGCTGT 22 167 2431 Antisense
AGCCTATACTTCAAGCTGTACAATA 56 85 2437 Antisense
GCTGTACAATATTTATGTTCAACCA 141 295 2451 Antisense
TATGTTCAACCAATACTCGATTATG 135 653 2464 Antisense
GATGCGAAATCTATAGTCCCACCTC 499 411 2489 Antisense
CTCGGGGGCTCTAATCAAACAACTG 387 229 2511 Antisense
CAACTGGAAAAGCCTCTCCGTTTCT 33 189 2530 Antisense
Sequence Source Affymetrix Proprietary Database