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[190442_at] reverse transcriptase

Description C08F1.8 /REP_DB=WormBase Gene ID /WP=CE08023 /TR=O17181 /GB=AAK31405.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 03      4grp_total > 19      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 35.5
(-2.7)
A 		36.6
(-2.6)
A 		30.8
(-3)
A 		126.1
(3)
P 		95
B 28.5
(-1.8)
A 		78.1
(3)
A 		16.7
(-3)
A 		47.8
(0)
A 		61
C 51.9
(-0.8)
A 		21.2
(-3)
A 		42.2
(-1.5)
P 		105
(3)
A 		84
avr 38.6
(-2.2) 		45.3
(-1.5) 		29.9
(-3) 		93
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 21.2
(-2.4)
A 		63.3
(3)
P 		45.8
(0.8)
A 		16.2
(-3)
A 		61.6
(2.8)
A 		36.4
(-0.4)
A 		47
B 54.3
(3)
A 		42.2
(1.1)
A 		15.5
(-3)
A 		53.4
(2.9)
A 		22.4
(-1.9)
A 		37
(0.3)
A 		39
C 51.4
(-1.3)
A 		78.5
(0.6)
A 		45.2
(-1.8)
A 		112.6
(3)
A 		31
(-2.8)
A 		27.9
(-3)
A 		85
avr 42.3
(-1.1) 		61.3
(3) 		35.5
(-2.6) 		60.7
(2.9) 		38.3
(-2) 		33.8
(-3) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 12.9
(-0.2)
A 		7.9
(-3)
A 		8.1
(-2.9)
A 		18.5
(3)
P 		11
B 9.1
(-1)
A 		19.3
(3)
A 		3.9
(-3)
A 		10.2
(-0.5)
A 		15
C 17.2
(2.7)
A 		6.1
(-3)
A 		14.7
(1.4)
P 		17.7
(3)
A 		12
avr 13.1
(0.8) 		11.1
(-1) 		8.9
(-3) 		15.5
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 3.9
(-3)
A 		22.5
(3)
P 		10
(-1)
A 		4.1
(-2.9)
A 		18.6
(1.7)
A 		8.9
(-1.4)
A 		19
B 18.9
(3)
A 		14.1
(1.1)
A 		3.8
(-3)
A 		14.1
(1.1)
A 		9.1
(-0.9)
A 		13.8
(1)
A 		15
C 19.1
(1)
A 		23.9
(3)
A 		11.5
(-2.1)
A 		22.6
(2.5)
A 		10
(-2.7)
A 		9.3
(-3)
A 		15
avr 14
(-0.2) 		20.2
(3) 		8.4
(-3) 		13.6
(-0.4) 		12.6
(-0.9) 		10.7
(-1.8) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190442_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5789
Sequence Type Exemplar sequence
Representative Public ID C08F1.8 NCBI
Target Description C08F1.8 /REP_DB=WormBase Gene ID /WP=CE08023 /TR=O17181 /GB=AAK31405.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061680(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061680 NCBI Caenorhabditis elegans C08F1.8 (C08F1.8) mRNA, complete cds. 11/11 None
SNAP00000012047 ENSEMBL cdna:SNAP chromosome:CEL140:II:1804212:1806142:-1 9/11 None
C08F1.8 ENSEMBL cdna:known chromosome:CEL140:II:1804212:1808297:-1 gene:C08F1.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000012053 4/11 Cross Hyb Matching Probes None
GENEFINDER00000012059 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:1804210-1808296(-) 100.0 100.0
Public Domain and Genome References
Gene Title reverse transcriptase
Ensembl C08F1.8
Entrez Gene 182412 Entrez gene
SwissProt O17181 EMBL-EBI
WormBase CE08023 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK31405 Hypothetical protein C08F1.8 [Caenorhabditis elegans] ref|NP_494081.1| C08F1.8 [Caenorhabditis elegans] 0.0
blast AAK31405 Hypothetical protein C08F1.8 [Caenorhabditis elegans] ref|NP_494081.1| C08F1.8 [Caenorhabditis elegans] 2.0E-83
blast T32338 hypothetical protein C08F1.5 - Caenorhabditis elegans 1.0E-50
blast AAM98051 Hypothetical protein C08F1.10 [Caenorhabditis elegans] ref|NP_872027.1| C08F1.10 [Caenorhabditis elegans] 6.0E-33
blast AAK31515 Hypothetical protein F36H5.4 [Caenorhabditis elegans] ref|NP_494072.1| F36H5.4 [Caenorhabditis elegans] 4.0E-32
blast T32338 hypothetical protein C08F1.5 - Caenorhabditis elegans 2.0E-31
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494081.1 11 22-44,59-81,94-116,120-142,167-186,201-223,297-319,332-354,449-471,491-513,526-548
C08F1.8 11 22-44,59-81,94-116,120-142,167-186,201-223,297-319,332-354,449-471,491-513,526-548
SNAP00000012047 6 39-58,68-90,198-220,224-242,268-287,297-319
Sequence
Target Sequence 
>C. ELEGANS:190442_AT
ggatcctcagaaggctgtgctttcgatttcttaaaatgtttaattttctatcaagttctc
ttctgcctctcaattcattgtagaacccaatttgagggtctctttcagaaatttcgaatt
ggcagacactgtacgtcatatttgagttttgtaaccatcaccgccctaatgggctatgcc
gtgtgtaatttgcttgtcctgctcgtggagcaactctctgaaacatgctccccaatgaac
tacaccttgttgaaaaccaccaaggctacgtactcccagaaaatgttcatggctatcttc
ttcgctatcaccgaggcctactacattggcctttgctatgtagacacatcttccttgccg
aatttctgtgtgatgatcgcattcgattacgcgatcccagtatgcccatggatcaatatc
ttggtgatcccgattgtctacagggccttcttggcttgcaactcccacgaacttggattc
ag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATCCTCAGAAGGCTGTGCTTTCG 388 513 1219 Antisense
TCTTCTGCCTCTCAATTCATTGTAG 610 617 1277 Antisense
ATCACCGCCCTAATGGGCTATGCCG 21 27 1375 Antisense
GCCGTGTGTAATTTGCTTGTCCTGC 576 283 1396 Antisense
AGCAACTCTCTGAAACATGCTCCCC 67 77 1427 Antisense
AAGGCTACGTACTCCCAGAAAATGT 233 161 1480 Antisense
AATGTTCATGGCTATCTTCTTCGCT 176 165 1500 Antisense
TCTTCCTTGCCGAATTTCTGTGTGA 117 619 1567 Antisense
CATTCGATTACGCGATCCCAGTATG 98 217 1598 Antisense
GATCCCGATTGTCTACAGGGCCTTC 527 413 1644 Antisense
GCAACTCCCACGAACTTGGATTCAG 345 313 1676 Antisense
Sequence Source Affymetrix Proprietary Database