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[175596_at]

Description g3176394 /REP_DB=GenBank Identifier /GB=AB015041.1 /PROTEIN_GB=BAA28677.1 /CHR=1 /FEA=Mapped Transcript /DEF=PIF1
Cluster 6grp_total > 97      4grp_total > 30      6grp_cgc > 68      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 26.2
(-1.9)
A 		36.9
(3)
A 		33.7
(1.5)
A 		23.9
(-3)
A 		13
B 71.2
(3)
A 		13.5
(-2.3)
A 		5.6
(-3)
A 		49.1
(1)
A 		66
C 71.4
(3)
A 		46.7
(0.7)
A 		7.3
(-3)
A 		61
(2)
A 		64
avr 56.3
(3) 		32.4
(-0.5) 		15.5
(-3) 		44.7
(1.3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 8.4
(-2.7)
A 		6
(-3)
A 		12.4
(-2.2)
A 		7.4
(-2.8)
A 		51.9
(2.6)
A 		55.2
(3)
A 		49
B 12.6
(-2.2)
A 		4.5
(-3)
A 		8.1
(-2.7)
A 		6.3
(-2.8)
A 		7.5
(-2.7)
A 		68
(3)
A 		64
C 4.4
(-3)
A 		6.7
(-2.6)
A 		23.5
(0.2)
A 		40.5
(3)
A 		35.7
(2.2)
A 		24.3
(0.3)
A 		36
avr 8.5
(-2.6) 		5.7
(-3) 		14.7
(-1.8) 		18.1
(-1.3) 		31.7
(0.6) 		49.2
(3) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 9.5
(3)
A 		8
(1.5)
A 		8.8
(2.3)
A 		3.5
(-3)
A 		6
B 22.7
(3)
A 		3.3
(-2.4)
A 		1.3
(-3)
A 		10.5
(-0.4)
A 		21
C 23.6
(3)
A 		13.4
(0.1)
A 		2.6
(-3)
A 		10.3
(-0.8)
A 		21
avr 18.6
(3) 		8.2
(-1.3) 		4.2
(-3) 		8.1
(-1.4) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 1.5
(-3)
A 		2.1
(-2.7)
A 		2.7
(-2.5)
A 		1.9
(-2.8)
A 		15.7
(3)
A 		13.4
(2)
A 		14
B 4.4
(-2.3)
A 		1.5
(-3)
A 		2
(-2.9)
A 		1.7
(-2.9)
A 		3.1
(-2.6)
A 		25.4
(3)
A 		24
C 1.6
(-3)
A 		2
(-2.8)
A 		6
(-0.4)
A 		8.1
(0.9)
A 		11.6
(3)
A 		8.1
(0.9)
A 		10
avr 2.5
(-2.7) 		1.9
(-3) 		3.6
(-2.3) 		3.9
(-2.1) 		10.1
(0.6) 		15.6
(3) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175596_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19624
Sequence Type Exemplar sequence
Representative Public ID 3176394 NCBI
Target Description g3176394 /REP_DB=GenBank Identifier /GB=AB015041.1 /PROTEIN_GB=BAA28677.1 /CHR=1 /FEA=Mapped Transcript /DEF=PIF1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_058373(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058373 NCBI Caenorhabditis elegans PIF1p DNA helicase (yeast) homolog family member (pif-1) (pif-1) mRNA, complete cds. 11/11 None
SNAP00000022335 ENSEMBL cdna:SNAP chromosome:CEL140:I:723375:735420:1 9/11 None
GENEFINDER00000022376 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:729720:730965:1 9/11 None
Y18H1A.6 ENSEMBL cdna:known chromosome:CEL140:I:720014:731077:1 gene:Y18H1A.6 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
Alignment(s)
Position Identity Coverage Cytoband
chrI:720074-731077(+) 97.43 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pif-1
Ensembl Y18H1A.6
Entrez Gene 171665 Entrez gene
SwissProt Q9BL90 EMBL-EBI
WormBase CE30311 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.26163.1.S1_AT similar to PIF1 homolog cfa
DROSOPHILA_2:1639821_AT dm
DROSGENOME1:154666_AT dm
CHICKEN:GGA.16531.1.S1_AT similar to Zgc:56161 gga
HG-U133_PLUS_2:228252_AT chromosome 15 open reading frame 20 hs
HG-U133B:228252_AT chromosome 15 open reading frame 20 hs
HU35KSUBA:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HU35KSUBB:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HU35KSUBC:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HU35KSUBD:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HUGENEFL:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HC-G110:HUM_ALU_AT chromosome 15 open reading frame 20 hs
HU35KSUBA:RC_AA278838_S_AT chromosome 15 open reading frame 20 hs
HU35KSUBD:RC_AA464522_AT chromosome 15 open reading frame 20 hs
U133_X3P:HS2.287711.2.S1_3P_X_AT chromosome 15 open reading frame 20 hs
U133_X3P:HS.112160.0.S1_3P_AT chromosome 15 open reading frame 20 hs
HG-U133_PLUS_2:1555591_AT chromosome 15 open reading frame 20 hs
HG-U95B:56994_AT chromosome 15 open reading frame 20 hs
MG-U74CV2:165659_AT expressed sequence AI449441 mm
MOE430B:1436738_AT expressed sequence AI449441 mm
MOUSE430_2:1436738_AT expressed sequence AI449441 mm
MOE430B:1439297_AT expressed sequence AI449441 mm
MOUSE430_2:1439297_AT expressed sequence AI449441 mm
YEAST_2:1779330_AT DNA helicase involved in telomere formation and elongation; acts as a catalytic inhibitor of telomerase; also plays a role in repair and recombination of mitochondrial DNA Sc
Protein Similarities
Method ID Description E-Value
blast NP_490774 PIF1p DNA helicase (yeast) homolog family member (pif-1) [Caenorhabditis elegans] gb|AAK21508.2| Pif1p dna helicase (yeast) homolog protein 1 [Caenorhabditis elegans] dbj|BAA28677.1| PIF1 [Caenorhabditis elegans] 0.0
blast CAE61318 Hypothetical protein CBG05155 [Caenorhabditis briggsae] 0.0
blast CAE61318 Hypothetical protein CBG05155 [Caenorhabditis briggsae] 1.0E-149
blast XP_785439 PREDICTED: similar to PIF1 homolog [Strongylocentrotus purpuratus] 1.0E-105
blast XP_785439 PREDICTED: similar to PIF1 homolog [Strongylocentrotus purpuratus] 5.0E-77
blast NP_490774 PIF1p DNA helicase (yeast) homolog family member (pif-1) [Caenorhabditis elegans] gb|AAK21508.2| Pif1p dna helicase (yeast) homolog protein 1 [Caenorhabditis elegans] dbj|BAA28677.1| PIF1 [Caenorhabditis elegans] 2.0E-32
Protein Domains
Database ID Description E-Value
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 2.9E-8
Pfam IPR010285 EMBL-EBI Eukaryotic protein of unknown function DUF889 2.9E-8
Sequence
Target Sequence 
>C. ELEGANS:175596_AT
caagccgatgcttccattgagatccgccgctccaagttctcagtccgcattcccgggagt
gatgctccgttgattcgccgtcaactcccactccaactcgcctgggccatctccattcac
aaatcgcagggaatgacgctcgactgtgcggaaatttcgttggagcgcgttttcgccgac
ggacaggcgtatgtggcgttgtcgcgcgcacgatcactggcggcaattcgaattatcggc
ttcgacgcgtcgtgtgtccgagcgaattcaaaggttatcgatttttacaaatccatcgag
gcagaatgcgacgacgaacaggactgggaagcccctgctgctggaccaaggctcaagcga
gttcgatcgatttaatttttttttttaaatttttttgtgatctccaaatgttctgtcttt
c

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGCCGATGCTTCCATTGAGATCC 455 185 1678 Antisense
GGGAGTGATGCTCCGTTGATTCGCC 3 497 1732 Antisense
CCATCTCCATTCACAAATCGCAGGG 259 271 1784 Antisense
CGCAGGGAATGACGCTCGACTGTGC 626 253 1802 Antisense
GAAATTTCGTTGGAGCGCGTTTTCG 535 363 1828 Antisense
GACGGACAGGCGTATGTGGCGTTGT 307 375 1855 Antisense
GGCGGCAATTCGAATTATCGGCTTC 290 541 1896 Antisense
CGTCGTGTGTCCGAGCGAATTCAAA 58 245 1925 Antisense
CGAACAGGACTGGGAAGCCCCTGCT 587 251 1992 Antisense
GCTGCTGGACCAAGGCTCAAGCGAG 303 297 2014 Antisense
GTGATCTCCAAATGTTCTGTCTTTC 361 483 2074 Antisense
Sequence Source GenBank