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[172365_x_at]

Description T03F1.4 /REP_DB=WormBase Gene ID /WP=CE13102 /TR=P91422 /GB=AAB42240.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 75      4grp_total > 10      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 1.9
(-3)
A 		4.5
(-0.5)
A 		3.2
(-1.8)
A 		8.2
(3)
A 		6
B 2.3
(-3)
A 		2.8
(1.3)
A 		2.8
(1.3)
A 		3
(3)
A 		1
C 2
(-3)
A 		3.5
(-2.7)
A 		3.3
(-2.8)
A 		34.9
(3)
A 		33
avr 2.1
(-3) 		3.6
(-2.3) 		3.1
(-2.5) 		15.4
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 2.7
(-3)
A 		3.2
(-2.6)
A 		4.6
(-1.5)
A 		3.1
(-2.7)
A 		2.7
(-3)
A 		10.4
(3)
A 		8
B 4.5
(3)
A 		2.5
(-0.9)
A 		2
(-1.8)
A 		2
(-1.8)
A 		2.2
(-1.5)
A 		1.4
(-3)
A 		3
C 1.6
(-3)
A 		6.5
(1.9)
A 		3
(-1.6)
A 		7.6
(3)
A 		4.7
(0.1)
A 		1.7
(-2.9)
A 		6
avr 2.9
(-3) 		4.1
(1.5) 		3.2
(-1.9) 		4.2
(1.9) 		3.2
(-1.9) 		4.5
(3) 		2
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 0.7
(-3)
A 		1
(0.6)
A 		0.8
(-1.8)
A 		1.2
(3)
A 		1
B 0.7
(3)
A 		0.7
(3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		0
C 0.6
(-3)
A 		1
(-2.5)
A 		1.2
(-2.3)
A 		5.9
(3)
A 		5
avr 0.7
(-3) 		0.9
(-2.4) 		0.9
(-2.4) 		2.6
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 0.5
(-3)
A 		1.1
(-1.2)
A 		1
(-1.5)
A 		0.8
(-2.1)
A 		0.8
(-2.1)
A 		2.5
(3)
A 		2
B 1.6
(3)
A 		0.8
(-1.4)
A 		0.5
(-3)
A 		0.5
(-3)
A 		0.9
(-0.8)
A 		0.5
(-3)
A 		1
C 0.6
(-3)
A 		2
(3)
A 		0.8
(-2.1)
A 		1.5
(0.9)
A 		1.5
(0.9)
A 		0.6
(-3)
A 		1
avr 0.9
(-1.8) 		1.3
(3) 		0.8
(-3) 		0.9
(-1.8) 		1.1
(0.6) 		1.2
(1.8) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172365_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.249
Sequence Type Exemplar sequence
Representative Public ID T03F1.4 NCBI
Target Description T03F1.4 /REP_DB=WormBase Gene ID /WP=CE13102 /TR=P91422 /GB=AAB42240.1 /SUBMIT=ST.LOUIS /CHR=1 /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_058839(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058839 NCBI Caenorhabditis elegans T03F1.4 (T03F1.4) mRNA, complete cds. 10/11 None
SNAP00000013113 ENSEMBL cdna:SNAP chromosome:CEL140:I:3847613:3852276:1 9/11 None
GENEFINDER00000013124 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3848084:3852276:1 11/11 None
T03F1.4 ENSEMBL cdna:known chromosome:CEL140:I:3848195:3852222:1 gene:T03F1.4 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077928 5/11 Cross Hyb Matching Probes A 
NM_078442 4/11 Cross Hyb Matching Probes A 
NM_063156 5/11 Cross Hyb Matching Probes A 
SNAP00000027025 5/11 Cross Hyb Matching Probes None
GENEFINDER00000027034 4/11 Cross Hyb Matching Probes None
SNAP00000016726 4/11 Cross Hyb Matching Probes None
GENEFINDER00000016739 4/11 Cross Hyb Matching Probes None
K02A2.6 5/11 Cross Hyb Matching Probes A 
C31E10.2 5/11 Cross Hyb Matching Probes A 
F39B3.3 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title
Ensembl T03F1.4
Entrez Gene 188021 Entrez gene
SwissProt P91422 EMBL-EBI
WormBase CE36714 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6278 RNA-dependent DNA replication inferred from electronic annotation QuickGO AmiGO
6310 DNA recombination inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
3964 RNA-directed DNA polymerase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_491240 T03F1.4 [Caenorhabditis elegans] gb|AAB42240.2| Hypothetical protein T03F1.4 [Caenorhabditis elegans] 0.0
blast AAB71256 Hypothetical protein T23E7.1 [Caenorhabditis elegans] ref|NP_510849.1| T23E7.1 [Caenorhabditis elegans] 0.0
blast AAC46707 Hypothetical protein K02A2.6 [Caenorhabditis elegans] ref|NP_495557.1| K02A2.6 [Caenorhabditis elegans] sp|Q09575|YRD6_CAEEL Hypothetical protein K02A2.6 in chromosome II 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 2.2E-46
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 2.0E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-40
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 2.2E-46
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 2.0E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-40
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 2.2E-46
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 2.0E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.3E-40
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491240.2 1 1185-1207
T03F1.4 1 1185-1207
Sequence
Target Sequence 
>C. ELEGANS:172365_X_AT
aagtttggtggtgttctctacgaagttcaagtcggagacagaatccaaaagtctcacgtt
aatcagattcggactcgttatggctcgtctgttaatcctagattgtcttccgattctttt
ggttttgtgggggagagtggcggtgatgagatgtcccgcaatgatgatccagttgttact
tcgaacggttccagtactgatgtcaatcgtggaagccgaatcacaagtgaactaaagaag
aaagaaagcaatgcagtcagaggacagccacgtggatcctgctctccaaccaacaacgac
gtttcggcgcccggatacgcctcacgttctcacccgaccaccgacccaagccattccgta
agacgaagttcgcgaattcgacgagtaccggacagatatggttcatctgtggagcaccct
tcaacctccaccggaactccgcgaggatcgacatccacacagctcggtcaagcctccact
cgcaacggaagtcgatatacagcttctggtcgaaacccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTTTGGTGGTGTTCTCTACGAAG 91 155 3352 Antisense
AGATTCGGACTCGTTATGGCTCGTC 174 65 3416 Antisense
ATGGCTCGTCTGTTAATCCTAGATT 282 53 3431 Antisense
GATTGTCTTCCGATTCTTTTGGTTT 457 435 3452 Antisense
GATGTCCCGCAATGATGATCCAGTT 231 409 3501 Antisense
GATCCAGTTGTTACTTCGAACGGTT 119 415 3517 Antisense
CAGTCAGAGGACAGCCACGTGGATC 478 205 3605 Antisense
TCTCCAACCAACAACGACGTTTCGG 522 605 3634 Antisense
TATGGTTCATCTGTGGAGCACCCTT 659 655 3748 Antisense
CGAGGATCGACATCCACACAGCTCG 72 251 3793 Antisense
TATACAGCTTCTGGTCGAAACCCCT 333 659 3847 Antisense
Sequence Source Affymetrix Proprietary Database