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[172829_x_at]

Description C29F5.6 /REP_DB=WormBase Gene ID /WP=CE02513 /TR=Q18309 /GB=AAC46825.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Reverse transcriptase
Cluster 6grp_total > 60      4grp_total > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 528
1 2 3 4 range
A 7.8
(-2.9)
A 		5.6
(-3)
A 		15
(-2.8)
A 		257
(3)
A 		251
B 13.8
(-2.2)
A 		11.4
(-3)
A 		29.2
(3)
A 		17.3
(-1)
A 		18
C 8.4
(-3)
A 		8.9
(-3)
A 		6.3
(-3)
A 		533.6
(3)
P 		527
avr 10
(-3) 		8.6
(-3) 		16.8
(-2.8) 		269.3
(3) 		261

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 16
(3)
A 		3.5
(-3)
A 		11.1
(0.6)
A 		5.7
(-1.9)
A 		11.7
(0.9)
A 		5.2
(-2.2)
A 		13
B 3.6
(-3)
A 		12.1
(1)
A 		10.4
(0.2)
A 		16.5
(3)
A 		4.4
(-2.6)
A 		13.4
(1.6)
A 		13
C 22.6
(-0.2)
A 		12.3
(-1.9)
A 		16.2
(-1.2)
A 		41.6
(3)
A 		5.6
(-3)
A 		6.8
(-2.8)
A 		36
avr 14.1
(-0.1) 		9.3
(-2.1) 		12.6
(-0.7) 		21.3
(3) 		7.2
(-3) 		8.5
(-2.4) 		14
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 2.8
(-2.7)
A 		1.2
(-3)
A 		3.9
(-2.6)
A 		37.6
(3)
A 		36
B 4.4
(-0.6)
A 		2.8
(-3)
A 		6.8
(3)
A 		3.7
(-1.7)
A 		4
C 2.8
(-3)
A 		2.6
(-3)
A 		2.2
(-3)
A 		90
(3)
P 		88
avr 3.3
(-2.8) 		2.2
(-3) 		4.3
(-2.7) 		43.8
(3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 2.9
(1.4)
A 		1.2
(-3)
A 		2.4
(0.1)
A 		1.4
(-2.5)
A 		3.5
(3)
A 		1.3
(-2.7)
A 		2
B 1.3
(-3)
A 		4
(1.4)
A 		2.5
(-1.1)
A 		4.4
(2)
A 		1.8
(-2.2)
A 		5
(3)
A 		4
C 8.4
(3)
A 		3.7
(-1.3)
A 		4.1
(-0.9)
A 		8.4
(3)
A 		1.8
(-3)
A 		2.3
(-2.5)
A 		7
avr 4.2
(1.7) 		3
(-1.4) 		3
(-1.4) 		4.7
(3) 		2.4
(-3) 		2.9
(-1.7) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172829_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4569
Sequence Type Exemplar sequence
Representative Public ID C29F5.6 NCBI
Target Description C29F5.6 /REP_DB=WormBase Gene ID /WP=CE02513 /TR=Q18309 /GB=AAC46825.1 /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_062865(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062865 NCBI Caenorhabditis elegans C29F5.6 (C29F5.6) mRNA, complete cds. 11/11 A 
SNAP00000032522 ENSEMBL cdna:SNAP chromosome:CEL140:II:6301814:6302842:-1 11/11 None
C29F5.6 ENSEMBL cdna:known chromosome:CEL140:II:6301814:6302842:-1 gene:C29F5.6 11/11 A 
Y113G7A.2 ENSEMBL cdna:pseudogene chromosome:CEL140:V:20039690:20042402:1 gene:Y113G7A.2 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_063332 1/11 Cross Hyb Matching Probes A 
NM_075927 5/11 Cross Hyb Matching Probes A 
NM_072761 6/11 Cross Hyb Matching Probes A 
NM_058704 2/11 Cross Hyb Matching Probes A 
NM_058536 8/11 Cross Hyb Matching Probes A 
NM_062489 7/11 Cross Hyb Matching Probes A 
NM_067826 7/11 Cross Hyb Matching Probes A 
NM_069210 4/11 Cross Hyb Matching Probes A 
NM_072760 6/11 Cross Hyb Matching Probes None
SNAP00000001197 7/11 Cross Hyb Matching Probes None
GENEFINDER00000035332 2/11 Cross Hyb Matching Probes None
SNAP00000018816 6/11 Cross Hyb Matching Probes None
GENEFINDER00000018837 7/11 Cross Hyb Matching Probes None
Y37E3.18 8/11 Cross Hyb Matching Probes A 
K09H9.4 2/11 Cross Hyb Matching Probes A 
R05F9.4 7/11 Cross Hyb Matching Probes A 
M110.6 1/11 Cross Hyb Matching Probes A 
Y69A2AR.10 7/11 Cross Hyb Matching Probes A 
Y11D7A.6 4/11 Cross Hyb Matching Probes A 
F38E1.2 6/11 Cross Hyb Matching Probes A 
F38E1.1 4/11 Cross Hyb Matching Probes None
F52E1.12 6/11 Cross Hyb Matching Probes A 
Y60A3A.11 1/11 Cross Hyb Matching Probes A 
F31A9.6 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:4897427-4898342(+) 87.37 87.37
chrIV:2590311-2591226(+) 87.37 87.37
chrV:8384633-8385541(+) 86.69 86.69
chrV:20041494-20042405(+) 86.69 86.69
chrX:1789006-1789921(-) 85.81 85.81
chrI:2130471-2131386(-) 87.27 87.27
chrII:6301810-6302839(-) 100.0 100.0
Public Domain and Genome References
Ensembl C29F5.6
Y113G7A.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_495266 C29F5.6 [Caenorhabditis elegans] gb|AAC46825.1| Hypothetical protein C29F5.6 [Caenorhabditis elegans] 0.0
blast NP_494890 R05F9.4 [Caenorhabditis elegans] gb|AAA83167.1| Hypothetical protein R05F9.4 [Caenorhabditis elegans] 1.0E-167
blast NP_490937 Y37E3.18 [Caenorhabditis elegans] gb|AAK27868.1| Hypothetical protein Y37E3.18 [Caenorhabditis elegans] 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 8.6E-22
Sequence
Target Sequence 
>C. ELEGANS:172829_X_AT
taccacctagacggttaccctattgaacgaaaagctattaccagagaccttggattttta
ttctctgaaaagctggatttctctgagcattggaagaaatgtatcaatctagctaaattt
caactggccaacatgttcaaccagtacagtacctccaataagaaactaatgattctctta
tacaaaactttcatccgccctcgtttagaatatggaacagtagtgtcttctccgacaaaa
aaatcggatgagaaagcaatagagtctgtacaaaacgcattttctaggcgcctttatagt
agaatcaaaaaaagatatattaatccaactgataaagattacaaaactgccatggaacgt
aacgaactattcgacctccaaaccttaagcacgagacgtaaaataattgacagaatccaa
gtaatcagaatgaatactggtaaagtagacttaaaaacatctgagttttttgagcaacaa
gagacccacactcgttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACCACCTAGACGGTTACCCTATTG 359 585 454 Antisense
GACCTTGGATTTTTATTCTCTGAAA 358 383 499 Antisense
AAGCTGGATTTCTCTGAGCATTGGA 92 151 523 Antisense
TTTCAACTGGCCAACATGTTCAACC 589 671 571 Antisense
CATGTTCAACCAGTACAGTACCTCC 66 211 585 Antisense
CTTATACAAAACTTTCATCCGCCCT 441 221 630 Antisense
TCATCCGCCCTCGTTTAGAATATGG 610 621 644 Antisense
ATGGAACAGTAGTGTCTTCTCCGAC 563 51 665 Antisense
AAACGCATTTTCTAGGCGCCTTTAT 299 125 726 Antisense
TTCGACCTCCAAACCTTAAGCACGA 207 695 823 Antisense
AGCAACAAGAGACCCACACTCGTTC 610 75 926 Antisense
Sequence Source Affymetrix Proprietary Database