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[172430_x_at]

Description C08F1.9 /REP_DB=WormBase Gene ID /WP=CE08024 /TR=O17182 /GB=AAK31406.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 22      4grp_total > 12      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 470
1 2 3 4 range
A 132
(-1.7)
A 		87.3
(-2.2)
A 		27.1
(-3)
A 		496.8
(3)
A 		470
B 152.8
(1.7)
A 		172.4
(3)
A 		79.9
(-3)
A 		120
(-0.4)
A 		93
C 187.4
(-1.6)
A 		102.5
(-2.9)
A 		98.4
(-3)
A 		487.2
(3)
P 		389
avr 157.4
(-1.2) 		120.7
(-2) 		68.5
(-3) 		368
(3) 		300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 103.9
(3)
A 		42.5
(-1.8)
A 		103.2
(2.9)
A 		72.6
(0.5)
A 		89
(1.8)
A 		27.7
(-3)
A 		76
B 96.8
(3)
A 		78.1
(1.7)
A 		45.1
(-0.7)
A 		32.5
(-1.6)
A 		65.2
(0.8)
A 		12.4
(-3)
A 		84
C 18.3
(-2.3)
A 		107.6
(3)
A 		87
(1.8)
A 		71.5
(0.9)
A 		12.1
(-2.7)
A 		6.8
(-3)
A 		101
avr 73
(2.5) 		76.1
(2.8) 		78.4
(3) 		58.9
(1.1) 		55.4
(0.8) 		15.6
(-3) 		63
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 48.1
(0.8)
A 		19
(-1.9)
A 		7.1
(-3)
A 		72.7
(3)
A 		66
B 48.7
(3)
A 		42.6
(1.8)
A 		18.5
(-3)
A 		25.6
(-1.6)
A 		30
C 62
(0.7)
A 		29.5
(-3)
A 		34.3
(-2.5)
A 		82.2
(3)
P 		53
avr 52.9
(1.9) 		30.4
(-1.4) 		20
(-3) 		60.2
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 19.2
(0.7)
A 		15.1
(-0.5)
A 		22.5
(1.7)
A 		18.4
(0.5)
A 		26.8
(3)
A 		6.7
(-3)
A 		20
B 33.7
(3)
A 		26
(1.4)
A 		11
(-1.7)
A 		8.6
(-2.2)
A 		26.5
(1.5)
A 		4.6
(-3)
A 		29
C 6.8
(-2.1)
A 		32.8
(3)
A 		22.1
(0.9)
A 		14.4
(-0.6)
A 		3.9
(-2.7)
A 		2.3
(-3)
A 		31
avr 19.9
(1.6) 		24.6
(3) 		18.5
(1.2) 		13.8
(-0.2) 		19.1
(1.4) 		4.5
(-3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172430_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5982
Sequence Type Exemplar sequence
Representative Public ID C08F1.9 NCBI
Target Description C08F1.9 /REP_DB=WormBase Gene ID /WP=CE08024 /TR=O17182 /GB=AAK31406.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_064793(9), NM_066128(9), NM_075970(11), NM_061681(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064793 NCBI Caenorhabditis elegans K10F12.5 (K10F12.5) mRNA, complete cds. 9/11 A 
NM_066128 NCBI Caenorhabditis elegans C06E8.4 (C06E8.4) mRNA, complete cds. 9/11 A 
NM_075970 NCBI Caenorhabditis elegans Y102A11A.4 (Y102A11A.4) mRNA, complete cds. 11/11 None
NM_061681 NCBI Caenorhabditis elegans C08F1.9 (C08F1.9) mRNA, complete cds. 11/11 None
SNAP00000043540 ENSEMBL cdna:SNAP chromosome:CEL140:I:8627388:8630837:1 9/11 None
SNAP00000012049 ENSEMBL cdna:SNAP chromosome:CEL140:II:1808635:1811676:-1 11/11 None
GENEFINDER00000012051 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1809098:1811184:-1 11/11 None
SNAP00000030989 ENSEMBL cdna:SNAP chromosome:CEL140:III:6998056:7001331:-1 9/11 None
SNAP00000031879 ENSEMBL cdna:SNAP chromosome:CEL140:III:393244:396437:-1 9/11 None
GENEFINDER00000031882 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:393244:398577:-1 9/11 None
SNAP00000000198 ENSEMBL cdna:SNAP chromosome:CEL140:IV:16735126:16735877:1 9/11 None
SNAP00000006732 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4559813:4562185:-1 9/11 None
GENEFINDER00000006742 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4559813:4562230:-1 9/11 None
SNAP00000032429 ENSEMBL cdna:SNAP chromosome:CEL140:V:13126804:13128812:1 10/11 None
GENEFINDER00000032435 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13126804:13128812:1 10/11 None
GENEFINDER00000009534 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15395029:15400692:1 9/11 None
SNAP00000009529 ENSEMBL cdna:SNAP chromosome:CEL140:X:15397499:15400692:1 9/11 None
SNAP00000043287 ENSEMBL cdna:SNAP chromosome:CEL140:X:2002563:2008204:1 11/11 None
GENEFINDER00000043303 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2005165:2008204:1 11/11 None
SNAP00000022302 ENSEMBL cdna:SNAP chromosome:CEL140:X:61165:73142:-1 9/11 None
C08F1.9 ENSEMBL cdna:known chromosome:CEL140:II:1809098:1810759:-1 gene:C08F1.9 11/11 None
K10F12.5 ENSEMBL cdna:known chromosome:CEL140:III:393244:395661:-1 gene:K10F12.5 9/11 A 
C06E8.4 ENSEMBL cdna:known chromosome:CEL140:III:6998056:6999717:-1 gene:C06E8.4 9/11 A 
Y102A11A.4 ENSEMBL cdna:known chromosome:CEL140:X:2005787:2008204:1 gene:Y102A11A.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_078379 6/11 Cross Hyb Matching Probes A 
NM_077119 7/11 Cross Hyb Matching Probes A 
NM_071125 5/11 Cross Hyb Matching Probes None
NM_065740 1/11 Cross Hyb Matching Probes A 
NM_078455 6/11 Cross Hyb Matching Probes A 
NM_058672 8/11 Cross Hyb Matching Probes A 
NM_059054 8/11 Cross Hyb Matching Probes A 
GENEFINDER00000005898 8/11 Cross Hyb Matching Probes None
GENEFINDER00000043553 7/11 Cross Hyb Matching Probes None
SNAP00000039702 8/11 Cross Hyb Matching Probes None
GENEFINDER00000039704 8/11 Cross Hyb Matching Probes None
SNAP00000043894 8/11 Cross Hyb Matching Probes None
GENEFINDER00000043904 6/11 Cross Hyb Matching Probes None
GENEFINDER00000030995 7/11 Cross Hyb Matching Probes None
GENEFINDER00000014760 1/11 Cross Hyb Matching Probes None
SNAP00000014756 1/11 Cross Hyb Matching Probes None
GENEFINDER00000000200 7/11 Cross Hyb Matching Probes None
SNAP00000028592 7/11 Cross Hyb Matching Probes None
GENEFINDER00000028599 7/11 Cross Hyb Matching Probes None
SNAP00000033705 6/11 Cross Hyb Matching Probes None
GENEFINDER00000033772 6/11 Cross Hyb Matching Probes None
SNAP00000037693 7/11 Cross Hyb Matching Probes None
GENEFINDER00000037709 7/11 Cross Hyb Matching Probes None
SNAP00000039289 6/11 Cross Hyb Matching Probes None
GENEFINDER00000039297 6/11 Cross Hyb Matching Probes None
SNAP00000043497 7/11 Cross Hyb Matching Probes None
GENEFINDER00000043506 7/11 Cross Hyb Matching Probes None
SNAP00000001526 7/11 Cross Hyb Matching Probes None
GENEFINDER00000001539 7/11 Cross Hyb Matching Probes None
SNAP00000003414 4/11 Cross Hyb Matching Probes None
GENEFINDER00000003424 4/11 Cross Hyb Matching Probes None
SNAP00000028144 5/11 Cross Hyb Matching Probes None
GENEFINDER00000028157 5/11 Cross Hyb Matching Probes None
GENEFINDER00000034063 5/11 Cross Hyb Matching Probes None
SNAP00000034055 6/11 Cross Hyb Matching Probes None
SNAP00000007929 6/11 Cross Hyb Matching Probes None
GENEFINDER00000007942 3/11 Cross Hyb Matching Probes None
SNAP00000003534 6/11 Cross Hyb Matching Probes None
GENEFINDER00000003544 6/11 Cross Hyb Matching Probes None
SNAP00000035247 7/11 Cross Hyb Matching Probes None
GENEFINDER00000035253 7/11 Cross Hyb Matching Probes None
GENEFINDER00000022354 7/11 Cross Hyb Matching Probes None
SNAP00000022319 1/11 Cross Hyb Matching Probes None
Y71F9AL.3 8/11 Cross Hyb Matching Probes A 
F54D7.1 8/11 Cross Hyb Matching Probes A 
Y53C12A.5 6/11 Cross Hyb Matching Probes None
F52C9.6 1/11 Cross Hyb Matching Probes A 
Y105C5A.7 6/11 Cross Hyb Matching Probes None
Y32G9A.9 5/11 Cross Hyb Matching Probes None
F44G3.3 4/11 Cross Hyb Matching Probes A 
C24A3.7 7/11 Cross Hyb Matching Probes A 
B0302.3 6/11 Cross Hyb Matching Probes A 
C33E10.4 6/11 Cross Hyb Matching Probes None
F20B4.7 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Ensembl C08F1.9
K10F12.5
C06E8.4
Y102A11A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB71003 Hypothetical protein K10F12.5 [Caenorhabditis elegans] ref|NP_497194.1| K10F12.5 [Caenorhabditis elegans] 0.0
blast AAC72298 reverse transcriptase [Caenorhabditis elegans] 0.0
blast C87861 protein F43G9.7 [imported] - Caenorhabditis elegans 0.0
blast NP_498529 C06E8.4 [Caenorhabditis elegans] 0.0
blast 2206357A Rte-1 element 0.0
blast H88671 protein F28E10.3 [imported] - Caenorhabditis elegans 0.0
blast NP_508371 Y102A11A.4 [Caenorhabditis elegans] 0.0
blast NP_494082 C08F1.9 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 1.3E-22
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.4E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 1.6E-7
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.6E-56
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.8E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.8E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.4E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.8E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 6.7E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.7E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 6.7E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.7E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 2.7E-7
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.7E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.7E-6
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 2.7E-7
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 2.6E-7
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.4E-25
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 6.7E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-61
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 4.8E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.8E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 4.8E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.8E-61
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 1.5E-29
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.9E-44
Pfam IPR001585 EMBL-EBI Transaldolase 2.6E-9
Pfam IPR001585 EMBL-EBI Transaldolase 8.9E-94
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 3.1E-33
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 3.6E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000012049 6 9-31,46-65,77-99,787-809,832-854,864-883
Sequence
Target Sequence 
>C. ELEGANS:172430_X_AT
cgacgtcgacgagtacatctacctcggtcgtcaaatcaacgcccaaaacaacttgatgcc
ggaaatccaccgaagacgtcgagcagcctgggctgcattcaatggaatcaagaatgccac
cgactccatcaccgacaagaagattcgtgcgaatctgttcgactcaattgtccttccagc
gctcacctacggttcagaagcctggacattcaccaaagctctatctgaacgagtacgaat
cacacatgcctccctagaaagacggcttgttgggataacactcacccaacaacgagagcg
agatttccatcgagaagacatccgagtgatgtctcaagtaagagatccgctcaacttcgt
gaaaaagaggaagctaggatgggctggacatgttgcgagaagaagagacggaagatggac
cacgttgatgacagaatggcgcccatatggatggaaaaggcctgttggaaggccgccgat
gcgatggactgattcgctgcgaaaggagatcaccactcgtgacgcagacggaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGACGTCGACGAGTACATCTACCTC 456 251 1059 Antisense
CTACCTCGGTCGTCAAATCAACGCC 533 225 1077 Antisense
CAGCCTGGGCTGCATTCAATGGAAT 340 203 1142 Antisense
GGAATCAAGAATGCCACCGACTCCA 408 533 1162 Antisense
ATCTGTTCGACTCAATTGTCCTTCC 187 35 1211 Antisense
GCTCACCTACGGTTCAGAAGCCTGG 205 301 1239 Antisense
GAAGCCTGGACATTCACCAAAGCTC 247 345 1255 Antisense
GAACGAGTACGAATCACACATGCCT 573 347 1285 Antisense
GTAAGAGATCCGCTCAACTTCGTGA 435 461 1396 Antisense
GGCCGCCGATGCGATGGACTGATTC 83 543 1529 Antisense
TCACCACTCGTGACGCAGACGGAGA 145 625 1568 Antisense
Sequence Source Affymetrix Proprietary Database