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[177941_at]

Description F28G4.2 /REP_DB=WormBase Gene ID /WP=CE15920 /TR=O17852 /GB=CAB07605.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 82      4grp_total > 57      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 4.7
(-3)
A 		120.5
(3)
A 		100.9
(2)
A 		49.7
(-0.7)
A 		116
B 61.4
(0)
A 		51.6
(-0.6)
A 		105.1
(3)
A 		16.6
(-3)
A 		89
C 22
(-2.3)
A 		117.8
(3)
A 		112.7
(2.7)
A 		9.6
(-3)
A 		108
avr 29.4
(-2.7) 		96.6
(2.3) 		106.2
(3) 		25.3
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 27
(-2.1)
A 		109
(1.8)
A 		67.4
(-0.2)
A 		121.9
(2.4)
A 		135.5
(3)
A 		7
(-3)
A 		129
B 16.3
(-3)
A 		180
(3)
A 		122.7
(0.9)
A 		109.5
(0.4)
A 		148.4
(1.8)
A 		21.8
(-2.8)
A 		164
C 53.1
(-2.4)
A 		144.4
(3)
A 		67.6
(-1.5)
A 		105.8
(0.7)
A 		83.1
(-0.6)
A 		42.7
(-3)
A 		102
avr 32.1
(-2.6) 		144.5
(3) 		85.9
(0.1) 		112.4
(1.4) 		122.3
(1.9) 		23.8
(-3) 		121
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 1.7
(-3)
A 		26.1
(2.9)
A 		26.4
(3)
A 		7.3
(-1.6)
A 		25
B 19.6
(1.6)
A 		12.7
(-0.3)
A 		24.3
(3)
A 		3.5
(-3)
A 		21
C 7.3
(-2.1)
A 		33.9
(2.1)
A 		39.3
(3)
A 		1.6
(-3)
A 		38
avr 9.5
(-1.7) 		24.2
(1.7) 		30
(3) 		4.1
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 5
(-2.5)
A 		38.8
(2.7)
A 		14.7
(-1)
A 		30.9
(1.5)
A 		40.9
(3)
A 		1.7
(-3)
A 		39
B 5.7
(-3)
A 		59.9
(3)
A 		29.8
(-0.4)
A 		29
(-0.4)
A 		60.3
(3)
A 		8.1
(-2.7)
A 		55
C 19.7
(-1.9)
A 		44.1
(3)
A 		17.2
(-2.4)
A 		21.3
(-1.6)
A 		26.9
(-0.5)
A 		14.3
(-3)
A 		30
avr 10.1
(-2.7) 		47.6
(3) 		20.6
(-1.1) 		27.1
(-0.1) 		42.7
(2.3) 		8
(-3) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177941_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12679
Sequence Type Exemplar sequence
Representative Public ID F28G4.2 NCBI
Target Description F28G4.2 /REP_DB=WormBase Gene ID /WP=CE15920 /TR=O17852 /GB=CAB07605.1 /SUBMIT=HINXTON /CHR=5 /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_074709(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074709 NCBI Caenorhabditis elegans F28G4.2 (F28G4.2) mRNA, complete cds. 11/11 None
SNAP00000032994 ENSEMBL cdna:SNAP chromosome:CEL140:V:16283219:16288275:-1 11/11 None
GENEFINDER00000033000 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16283219:16288275:-1 11/11 None
F28G4.2 ENSEMBL cdna:known chromosome:CEL140:V:16283219:16284847:-1 gene:F28G4.2 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
chrV:16283218-16284847(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28G4.2
Entrez Gene 185080 Entrez gene
SwissProt O17852 EMBL-EBI
WormBase CE15920 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07605 Hypothetical protein F28G4.2 [Caenorhabditis elegans] ref|NP_507110.1| F28G4.2 [Caenorhabditis elegans] 0.0
blast CAB07607 Hypothetical protein F28G4.4 [Caenorhabditis elegans] ref|NP_507111.2| F28G4.4 [Caenorhabditis elegans] 0.0
blast CAB07607 Hypothetical protein F28G4.4 [Caenorhabditis elegans] ref|NP_507111.2| F28G4.4 [Caenorhabditis elegans] 1.0E-168
blast CAE56603 Hypothetical protein CBG24357 [Caenorhabditis briggsae] 1.0E-140
blast CAB07607 Hypothetical protein F28G4.4 [Caenorhabditis elegans] ref|NP_507111.2| F28G4.4 [Caenorhabditis elegans] 1.0E-131
blast AAK39343 Hypothetical protein Y51H7C.12 [Caenorhabditis elegans] ref|NP_493974.1| Y51H7C.12 [Caenorhabditis elegans] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR005069 EMBL-EBI Protein of unknown function DUF271 1.0E-126
Pfam IPR005069 EMBL-EBI Protein of unknown function DUF271 1.0E-126
Pfam IPR005069 EMBL-EBI Protein of unknown function DUF271 1.0E-126
Pfam IPR005069 EMBL-EBI Protein of unknown function DUF271 1.0E-126
Pfam IPR005069 EMBL-EBI Protein of unknown function DUF271 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507110.1 1 7-24
F28G4.2 1 7-24
SNAP00000032994 1 5-27
GENEFINDER00000033000 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:177941_AT
ttggtcaatgcatccggacacaatttggactcaaaacttcactcaattgaatgttgagca
aatgtatccggatgcgaacctaatttttgatacaatcgggaatgatactccgtattatat
gagaatgaagaattggatatgtggagccacgttttttgtcaggggtaatccgacgactta
tcagtttttcagacagacagaatccttcatgttatcctttcaaagcccagactctacagt
tatggcatatttatgtggtcacagccgttataagtgcagttttctaccccacacaattgc
ctcaaactacaactatttcgaaggtccacgtgaaaatgttcctgctcttgttcagctcga
cgctgggaagttggagggagaatcgaaaatggatcttttgaaacgtgtaaattttatttt
ccaatttgaaaatggaacttgtaatcctgaagcgtttcaaaatgcgagagaaattgtgaa
aaatgcgtttgcggatacacctcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGTCAATGCATCCGGACACAATT 605 707 516 Antisense
ATCCGGATGCGAACCTAATTTTTGA 96 37 581 Antisense
AGGGGTAATCCGACGACTTATCAGT 478 53 676 Antisense
GTTATCCTTTCAAAGCCCAGACTCT 523 447 726 Antisense
AGCCCAGACTCTACAGTTATGGCAT 173 83 739 Antisense
TATAAGTGCAGTTTTCTACCCCACA 444 659 784 Antisense
CCCACACAATTGCCTCAAACTACAA 55 259 803 Antisense
ACAACTATTTCGAAGGTCCACGTGA 48 111 824 Antisense
GAAAATGTTCCTGCTCTTGTTCAGC 437 353 847 Antisense
CTCTTGTTCAGCTCGACGCTGGGAA 481 229 860 Antisense
AAATGCGTTTGCGGATACACCTCGT 383 119 996 Antisense
Sequence Source Affymetrix Proprietary Database