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[172818_x_at]

Description F02E9.8 /REP_DB=WormBase Gene ID /WP=CE09191 /CHR=1 /FEA=Sanger Annotation /DEF=reverse transcriptase (HINXTON) TR:O17770 protein_id:CAB02919.1
Cluster 6grp_total > 01      4grp_total > 26      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 76.7
(-3)
A 		112.9
(-0.5)
A 		103.2
(-1.2)
A 		162.8
(3)
A 		86
B 12.7
(-3)
A 		93.9
(3)
A 		17.6
(-2.6)
A 		55.8
(0.2)
A 		81
C 26.8
(-3)
A 		116.5
(-0.5)
A 		25.8
(-3)
A 		239.3
(3)
A 		214
avr 38.7
(-3) 		107.8
(0.6) 		48.9
(-2.5) 		152.6
(3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 44.6
(0.3)
A 		72.9
(3)
A 		49.6
(0.8)
A 		10.8
(-3)
A 		38.9
(-0.3)
A 		10.4
(-3)
A 		63
B 24.1
(-2.8)
A 		81.4
(2.5)
A 		22.2
(-3)
A 		51.5
(-0.3)
A 		86.7
(3)
A 		23.9
(-2.8)
A 		65
C 68.1
(0.4)
A 		105.6
(3)
A 		50.3
(-0.8)
A 		17.4
(-3)
A 		20.5
(-2.8)
A 		51.2
(-0.7)
A 		88
avr 45.6
(-1.1) 		86.6
(3) 		40.7
(-1.6) 		26.6
(-3) 		48.7
(-0.8) 		28.5
(-2.8) 		60
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 27.9
(3)
A 		24.5
(-2)
A 		27
(1.7)
A 		23.8
(-3)
A 		4
B 4
(-3)
A 		23.2
(3)
A 		4.1
(-3)
A 		11.9
(-0.5)
A 		19
C 8.9
(-3)
A 		33.5
(1.7)
A 		9
(-3)
A 		40.3
(3)
A 		31
avr 13.6
(-2.9) 		27.1
(3) 		13.4
(-3) 		25.3
(2.2) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 8.2
(-1.5)
A 		25.9
(3)
A 		10.8
(-0.9)
A 		2.7
(-2.9)
A 		11.7
(-0.6)
A 		2.5
(-3)
A 		23
B 8.4
(-2.4)
A 		27.1
(1.4)
A 		5.4
(-3)
A 		13.7
(-1.3)
A 		35.2
(3)
A 		8.9
(-2.3)
A 		30
C 25.2
(1.5)
A 		32.2
(3)
A 		12.8
(-1.1)
A 		3.5
(-3)
A 		6.6
(-2.4)
A 		17.2
(-0.1)
A 		29
avr 13.9
(-1) 		28.4
(3) 		9.7
(-2.1) 		6.6
(-3) 		17.8
(0.1) 		9.5
(-2.2) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172818_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.778
Sequence Type Exemplar sequence
Representative Public ID F02E9.8 NCBI
Target Description F02E9.8 /REP_DB=WormBase Gene ID /WP=CE09191 /CHR=1 /FEA=Sanger Annotation /DEF=reverse transcriptase (HINXTON) TR:O17770 protein_id:CAB02919.1
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_075922(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075922 NCBI Caenorhabditis elegans Y75D11A.4 (Y75D11A.4) mRNA, complete cds. 9/11 A 
SNAP00000043608 ENSEMBL cdna:SNAP chromosome:CEL140:I:8441707:8442195:1 9/11 None
GENEFINDER00000043621 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8441707:8442195:1 9/11 None
SNAP00000021928 ENSEMBL cdna:SNAP chromosome:CEL140:X:1762699:1764846:-1 9/11 None
GENEFINDER00000021982 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1762699:1764384:-1 9/11 None
F02E9.8 ENSEMBL cdna:pseudogene chromosome:CEL140:I:8441305:8442195:1 gene:F02E9.8 11/11 None
Y75D11A.4 ENSEMBL cdna:known chromosome:CEL140:X:1762699:1764141:-1 gene:Y75D11A.4 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_067753 3/11 Cross Hyb Matching Probes A 
NM_066214 3/11 Cross Hyb Matching Probes A 
NM_059031 6/11 Cross Hyb Matching Probes A 
NM_068720 5/11 Cross Hyb Matching Probes A 
GENEFINDER00000028191 6/11 Cross Hyb Matching Probes None
SNAP00000028189 6/11 Cross Hyb Matching Probes None
SNAP00000032856 3/11 Cross Hyb Matching Probes None
GENEFINDER00000032865 3/11 Cross Hyb Matching Probes None
SNAP00000003803 5/11 Cross Hyb Matching Probes None
GENEFINDER00000003821 5/11 Cross Hyb Matching Probes None
SNAP00000007753 3/11 Cross Hyb Matching Probes None
GENEFINDER00000007760 3/11 Cross Hyb Matching Probes None
SNAP00000032798 3/11 Cross Hyb Matching Probes None
W09C3.8 6/11 Cross Hyb Matching Probes A 
F56C9.2 3/11 Cross Hyb Matching Probes A 
Y76B12C.5 3/11 Cross Hyb Matching Probes A 
C34D4.5 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:8440529-8442126(+) 100.0 100.0
chrIII:7327860-7328744(+) 83.14 83.14
chrIV:7146331-7147215(+) 82.55 82.55
chrX:1762698-1763582(-) 84.6 84.6
chrI:4716059-4716598(-) 51.85 51.85
chrIV:1981949-1982565(-) 59.16 59.16
Public Domain and Genome References
Ensembl F02E9.8
Y75D11A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508323 Y75D11A.4 [Caenorhabditis elegans] 0.0
blast NP_498615 F56C9.2 [Caenorhabditis elegans] 0.0
blast AAB00700 Hypothetical protein C34D4.5 [Caenorhabditis elegans] ref|NP_501121.1| C34D4.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Sequence
Target Sequence 
>C. ELEGANS:172818_X_AT
ccgctatctgggtcgctggatcgacatttctggctcaattgacgaagagatctcgaggag
aataagagcaggttggggtgctctggttggaatcaaagaagtcttgagaatcatgccaaa
caaggaaagaatcatcctcttcaagcaaaatgtgctaccagctctcctgtatgctagtga
aacttggacttgtaatgctggatccacgttgagactcaaaagaactgtcaccggtctcat
cgacgctgcagaaattcgaggctggaacttcaacttggaacgttacctccttgcaaaaca
atcaagatttgcaggacacattctacggagagatccaaaccgatggacaaaaatctgcac
ggaatgggacccgagccacaacaaaaattggaaacgtgccgttggaggacagaagaagag
atgggctaaggacatcgacgaagaatacgcaaaattccaccacaattccgccatgtcggg
acaagtcgttgttgggagaagaagactaggaatgctcactccgaaggctccatggctgtc
catcgcacgaaccgaccgtgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGCTATCTGGGTCGCTGGATCGAC 329 263 438 Antisense
GATCGACATTTCTGGCTCAATTGAC 483 417 456 Antisense
TACCAGCTCTCCTGTATGCTAGTGA 682 649 593 Antisense
ATGCTGGATCCACGTTGAGACTCAA 560 41 632 Antisense
CAAAAGAACTGTCACCGGTCTCATC 229 191 654 Antisense
GGTCTCATCGACGCTGCAGAAATTC 398 501 670 Antisense
CAACTTGGAACGTTACCTCCTTGCA 141 187 708 Antisense
GAATGGGACCCGAGCCACAACAAAA 477 331 799 Antisense
CCACAATTCCGCCATGTCGGGACAA 35 275 897 Antisense
CTAGGAATGCTCACTCCGAAGGCTC 662 211 943 Antisense
TCCATCGCACGAACCGACCGTGAAA 410 589 976 Antisense
Sequence Source Affymetrix Proprietary Database