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[190398_at]

Description F48B9.6 /REP_DB=WormBase Gene ID /WP=CE04614 /TR=Q20554 /GB=AAA81750.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 10      4grp_total > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 11
(-3)
A 		125.4
(3)
A 		22.5
(-2.4)
A 		91.8
(1.2)
A 		114
B 32.3
(3)
A 		12.9
(-2.9)
A 		30.2
(2.4)
A 		12.7
(-3)
A 		20
C 57.4
(2.3)
A 		32.2
(-0.8)
A 		63.5
(3)
A 		13.9
(-3)
A 		50
avr 33.6
(-3) 		56.8
(3) 		38.7
(-1.7) 		39.5
(-1.5) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 12.7
(-3)
A 		76.1
(1.2)
A 		13.9
(-2.9)
A 		12.1
(-3)
A 		18.1
(-2.6)
A 		104.5
(3)
A 		92
B 19.4
(-1.9)
A 		51
(3)
A 		43.2
(1.8)
A 		12.6
(-3)
A 		22.6
(-1.4)
A 		13.4
(-2.9)
A 		38
C 11.1
(-2.8)
A 		43.1
(-1.1)
A 		56.5
(-0.4)
A 		123
(3)
A 		24.5
(-2.1)
A 		7.3
(-3)
A 		116
avr 14.4
(-3) 		56.7
(3) 		37.9
(0.3) 		49.2
(1.9) 		21.7
(-2) 		41.7
(0.9) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 4
(-3)
A 		27.2
(3)
A 		5.9
(-2.5)
A 		13.4
(-0.6)
A 		23
B 10.3
(3)
A 		3.2
(-2.6)
A 		7
(0.4)
A 		2.7
(-3)
A 		8
C 19
(2.1)
A 		9.3
(-0.9)
A 		22.1
(3)
A 		2.4
(-3)
A 		20
avr 11.1
(1.2) 		13.2
(3) 		11.7
(1.7) 		6.2
(-3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 2.3
(-3)
A 		27.1
(3)
A 		3
(-2.8)
A 		3.1
(-2.8)
A 		5.5
(-2.2)
A 		25.4
(2.6)
A 		25
B 6.8
(-1.5)
A 		17
(3)
A 		10.5
(0.2)
A 		3.3
(-3)
A 		9.2
(-0.4)
A 		5
(-2.3)
A 		14
C 4.1
(-2.6)
A 		13.2
(-0.1)
A 		14.4
(0.2)
A 		24.7
(3)
A 		7.9
(-1.5)
A 		2.5
(-3)
A 		22
avr 4.4
(-3) 		19.1
(3) 		9.3
(-1) 		10.4
(-0.6) 		7.5
(-1.7) 		11
(-0.3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190398_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18177
Sequence Type Exemplar sequence
Representative Public ID F48B9.6 NCBI
Target Description F48B9.6 /REP_DB=WormBase Gene ID /WP=CE04614 /TR=Q20554 /GB=AAA81750.1 /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_075999(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075999 NCBI Caenorhabditis elegans F48B9.7 (F48B9.7) mRNA, complete cds. 11/11 None
SNAP00000005466 ENSEMBL cdna:SNAP chromosome:CEL140:X:2168661:2168927:-1 11/11 None
F48B9.7 ENSEMBL cdna:known chromosome:CEL140:X:2168661:2169458:-1 gene:F48B9.7 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
chrX:2168660-2168927(-) 100.0 100.0
Public Domain and Genome References
Ensembl F48B9.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508400 F48B9.7 [Caenorhabditis elegans] 1.0E-121
blast NP_508400 F48B9.7 [Caenorhabditis elegans] 5.0E-44
blast AAK39265 Hypothetical protein R11E3.3 [Caenorhabditis elegans] ref|NP_500640.1| R11E3.3 [Caenorhabditis elegans] 2.0E-29
blast T19605 hypothetical protein C31C9.5 - Caenorhabditis elegans 2.0E-28
blast AAK39265 Hypothetical protein R11E3.3 [Caenorhabditis elegans] ref|NP_500640.1| R11E3.3 [Caenorhabditis elegans] 5.0E-23
blast T19605 hypothetical protein C31C9.5 - Caenorhabditis elegans 5.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 6.0E-15
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 4.6E-10
Sequence
Target Sequence 
>C. ELEGANS:190398_AT
ctgcccgagcccggaaaggacacgtcacttgccgctaacttccgccccatctcgttgatc
tcaccgcttgccaaagttctagagagactaatactgaagagagttctgcgacacatcgaa
tccccgccgcaccagcacggcttcaagaaactgcactccaccaccacagcaatcattgaa
gctctaaacaccatcacaggacgtctgaacggcaagagaccggtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGCCCGAGCCCGGAAAGGACACGT 589 227 16 Antisense
CCGGAAAGGACACGTCACTTGCCGC 708 259 26 Antisense
TCTCACCGCTTGCCAAAGTTCTAGA 466 613 74 Antisense
AATACTGAAGAGAGTTCTGCGACAC 627 169 105 Antisense
AGAGTTCTGCGACACATCGAATCCC 456 69 115 Antisense
CCGCACCAGCACGGCTTCAAGAAAC 312 263 142 Antisense
CACGGCTTCAAGAAACTGCACTCCA 338 199 151 Antisense
CCACCACAGCAATCATTGAAGCTCT 650 273 176 Antisense
GAAGCTCTAAACACCATCACAGGAC 313 343 193 Antisense
CACCATCACAGGACGTCTGAACGGC 524 201 204 Antisense
GTCTGAACGGCAAGAGACCGGTCGA 476 469 218 Antisense
Sequence Source Affymetrix Proprietary Database