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[180949_at]

Description Y43F4A.3 /REP_DB=WormBase Gene ID /WP=CE16624 /TR=O45929 /GB=CAB16473.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 91      4grp_total > 25      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 7.3
(-3)
A 		15.6
(2.9)
A 		15.7
(3)
A 		15.7
(3)
A 		8
B 2.5
(-3)
A 		12.8
(3)
A 		8.2
(0.3)
A 		8.7
(0.6)
A 		10
C 7.8
(-3)
A 		11.6
(-2.3)
A 		13.3
(-2.1)
A 		42.8
(3)
A 		35
avr 5.9
(-3) 		13.3
(-0.3) 		12.4
(-0.6) 		22.4
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 14.4
(2.5)
A 		6.7
(-1.4)
A 		3.5
(-3)
A 		6.9
(-1.3)
A 		6.1
(-1.7)
A 		15.4
(3)
A 		12
B 9
(-2.4)
A 		6.8
(-2.9)
A 		6.5
(-3)
A 		30.3
(3)
A 		30.1
(2.9)
A 		8.1
(-2.6)
A 		24
C 7.1
(-0.9)
A 		12.3
(3)
A 		4.4
(-3)
A 		5
(-2.5)
A 		9.6
(0.9)
A 		9
(0.5)
A 		8
avr 10.2
(0.1) 		8.6
(-0.8) 		4.8
(-3) 		14.1
(2.3) 		15.3
(3) 		10.8
(0.4) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 2.6
(-2)
A 		3.4
(0.7)
A 		4.1
(3)
A 		2.3
(-3)
A 		2
B 0.8
(-3)
A 		3.2
(3)
A 		1.9
(-0.3)
A 		1.9
(-0.3)
A 		2
C 2.6
(-3)
A 		3.3
(-2.1)
A 		4.6
(-0.4)
A 		7.2
(3)
A 		5
avr 2
(-3) 		3.3
(1.3) 		3.5
(2) 		3.8
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 2.7
(0.9)
A 		2.4
(0.3)
A 		0.8
(-3)
A 		1.8
(-0.9)
A 		1.8
(-0.9)
A 		3.7
(3)
A 		3
B 3.1
(-2.2)
A 		2.3
(-2.6)
A 		1.6
(-3)
A 		8
(0.6)
A 		12.2
(3)
A 		3
(-2.2)
A 		11
C 2.6
(0.4)
A 		3.8
(3)
A 		1.1
(-2.8)
A 		1
(-3)
A 		3.1
(1.5)
A 		3
(1.3)
A 		3
avr 2.8
(-0.9) 		2.8
(-0.9) 		1.2
(-3) 		3.6
(0.2) 		5.7
(3) 		3.2
(-0.3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180949_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8078
Sequence Type Exemplar sequence
Representative Public ID Y43F4A.3 NCBI
Target Description Y43F4A.3 /REP_DB=WormBase Gene ID /WP=CE16624 /TR=O45929 /GB=CAB16473.1 /SUBMIT=HINXTON /CHR=3 /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_067326(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067326 NCBI Caenorhabditis elegans Y43F4A.3 (Y43F4A.3) mRNA, complete cds. 11/11 None
GENEFINDER00000026853 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13229603:13240406:-1 10/11 None
SNAP00000026850 ENSEMBL cdna:SNAP chromosome:CEL140:III:13239451:13240406:-1 10/11 None
Y43F4A.3 ENSEMBL cdna:known chromosome:CEL140:III:13239524:13240406:-1 gene:Y43F4A.3 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
Public Domain and Genome References
Gene Title
Ensembl Y43F4A.3
Entrez Gene 189860 Entrez gene
SwissProt O45929 EMBL-EBI
WormBase CE16624 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast T26836 hypothetical protein Y43F4A.2 - Caenorhabditis elegans 0.0
blast T27790 hypothetical protein ZK228.2 - Caenorhabditis elegans 0.0
blast AAF98218 Hypothetical protein K06C4.14 [Caenorhabditis elegans] ref|NP_505289.1| K06C4.14 [Caenorhabditis elegans] 0.0
blast CAB16473 Hypothetical protein Y43F4A.3 [Caenorhabditis elegans] ref|NP_499727.1| Y43F4A.3 [Caenorhabditis elegans] 1.0E-100
blast CAB16473 Hypothetical protein Y43F4A.3 [Caenorhabditis elegans] ref|NP_499727.1| Y43F4A.3 [Caenorhabditis elegans] 8.0E-82
blast AAF60392 Hypothetical protein W09B7.1 [Caenorhabditis elegans] gb|AAK84505.1| Hypothetical protein F07B7.1 [Caenorhabditis elegans] ref|NP_505271.1| W09B7.1 [Caenorhabditis elegans] ref|NP_505285.1| F07B7.1 [Caenorhabditis elegans] 2.0E-74
blast AAF60392 Hypothetical protein W09B7.1 [Caenorhabditis elegans] gb|AAK84505.1| Hypothetical protein F07B7.1 [Caenorhabditis elegans] ref|NP_505271.1| W09B7.1 [Caenorhabditis elegans] ref|NP_505285.1| F07B7.1 [Caenorhabditis elegans] 1.0E-60
blast CAB16550 Hypothetical protein ZK262.9 [Caenorhabditis elegans] ref|NP_507610.1| ZK262.9 [Caenorhabditis elegans] 2.0E-16
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.6E-19
Pfam IPR008042 EMBL-EBI Retrotransposon, Pao 8.0E-101
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 0.0034
Sequence
Target Sequence 
>C. ELEGANS:180949_AT
cacaaagcaatacaggactccatcctcttccaacaaccgctcagctcccactttattgca
tcttttgccgcagaacctcacacagatccatcgactgcagaacaacgtcattctacatcc
atcggaagaatcgtgcccgctccaatggatactgtaccaagtgcatccaaccgctgattc
aatctgacgcaggtcaccacttgacctgcacggagccgaaagtctcgtgcgcccactgcc
acgagcactcggagaatcaagccaaatgtggtcacaacgaggtattctgcccgcttcaat
ttggcaaaaaaccggaaaaggccaccggggccgggaacaactccaacaaacgcgctagga
ctgcttcaccaaccgctgtcaaggcagacgctaagccagaggactcggaggttagtttat
tttattttttcgggaaaaatgaaacaaaaaatcgtttattgcgggactttacgagacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACAAAGCAATACAGGACTCCATCC 645 193 23 Antisense
CTCCCACTTTATTGCATCTTTTGCC 468 233 67 Antisense
TATTGCATCTTTTGCCGCAGAACCT 566 665 76 Antisense
CCTCACACAGATCCATCGACTGCAG 569 267 98 Antisense
CAACGTCATTCTACATCCATCGGAA 188 187 125 Antisense
ATCCATCGGAAGAATCGTGCCCGCT 345 39 139 Antisense
GATACTGTACCAAGTGCATCCAACC 151 425 170 Antisense
GACCTGCACGGAGCCGAAAGTCTCG 639 379 225 Antisense
GTATTCTGCCCGCTTCAATTTGGCA 210 453 304 Antisense
CAGACGCTAAGCCAGAGGACTCGGA 595 205 407 Antisense
GTTTATTGCGGGACTTTACGAGACG 160 445 476 Antisense
Sequence Source Affymetrix Proprietary Database