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[172673_x_at]

Description F59D8.F_rc /REP_DB=WormBase Gene ID /WP=CE20905 /CHR=X /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS) protein_id:AAF35969.1
Cluster 6grp_total > 93      4grp_total > 19      6grp_cgc > 99      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 28.1
(3)
A 		11.7
(-1.1)
A 		7.4
(-2.2)
A 		4.2
(-3)
A 		24
B 2.7
(-3)
A 		27.6
(3)
A 		14.7
(-0.1)
A 		9.6
(-1.3)
A 		25
C 9.6
(-2.9)
A 		11.1
(-2.7)
A 		8.7
(-3)
A 		56.3
(3)
A 		48
avr 13.5
(-1.5) 		16.8
(-0) 		10.3
(-3) 		23.4
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 715
1 2 3 4 5 6 range
A 23.8
(-2.8)
A 		5.7
(-3)
A 		7.5
(-3)
A 		8.7
(-3)
A 		450.5
(3)
P 		117.8
(-1.5)
M 		445
B 15.2
(-2.8)
A 		3.9
(-3)
A 		5.8
(-3)
A 		8.7
(-2.9)
A 		411.5
(3)
P 		94.9
(-1.7)
A 		408
C 4.3
(-3)
A 		5.3
(-3)
A 		7.7
(-3)
A 		40.8
(-2.7)
A 		719.3
(3)
P 		75.8
(-2.4)
A 		715
avr 14.4
(-2.9) 		5
(-3) 		7
(-3) 		19.4
(-2.8) 		527.1
(3) 		96.2
(-2) 		522
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 10.2
(3)
A 		2.5
(-1.8)
A 		1.9
(-2.2)
A 		0.6
(-3)
A 		10
B 0.8
(-3)
A 		6.8
(3)
A 		3.4
(-0.4)
A 		2.1
(-1.7)
A 		6
C 3.2
(-2.8)
A 		3.2
(-2.8)
A 		3
(-3)
A 		9.5
(3)
A 		7
avr 4.7
(3) 		4.2
(1.4) 		2.8
(-3) 		4.1
(1.1) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 232
1 2 3 4 5 6 range
A 4.4
(-2.9)
A 		2
(-3)
A 		1.6
(-3)
A 		2.2
(-3)
A 		135.9
(3)
P 		28.7
(-1.8)
M 		134
B 5.3
(-2.9)
A 		1.3
(-3)
A 		1.4
(-3)
A 		2.3
(-3)
A 		167.2
(3)
P 		35.4
(-1.8)
A 		166
C 1.6
(-3)
A 		1.6
(-3)
A 		2
(-3)
A 		8.2
(-2.8)
A 		232.8
(3)
P 		25.4
(-2.4)
A 		231
avr 3.8
(-2.9) 		1.6
(-3) 		1.7
(-3) 		4.2
(-2.9) 		178.6
(3) 		29.8
(-2) 		177
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172673_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28207
Sequence Type Exemplar sequence
Representative Public ID F59D8.F NCBI
Target Description F59D8.F_rc /REP_DB=WormBase Gene ID /WP=CE20905 /CHR=X /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS) protein_id:AAF35969.1
Cluster Evidence This cluster is supported by a 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_076211(9), NM_076212(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076211 NCBI Caenorhabditis elegans VITellogenin structural genes (yolk protein genes) family member (vit-4) (vit-4) mRNA, complete cds. 9/11 A 
NM_076212 NCBI Caenorhabditis elegans VITellogenin structural genes (yolk protein genes) family member (vit-3) (vit-3) mRNA, complete cds. 11/11 A 
SNAP00000016179 ENSEMBL cdna:SNAP chromosome:CEL140:X:3567445:3572527:-1 11/11 None
GENEFINDER00000016190 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3567531:3572587:-1 11/11 None
SNAP00000036909 ENSEMBL cdna:SNAP chromosome:CEL140:X:3558880:3564326:-1 9/11 None
GENEFINDER00000036913 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3558966:3564326:-1 9/11 None
F59D8.2 ENSEMBL cdna:known chromosome:CEL140:X:3558850:3563952:-1 gene:F59D8.2 9/11 A 
F59D8.1.2 ENSEMBL cdna:known chromosome:CEL140:X:3567155:3572527:-1 gene:F59D8.1 11/11 A 
F59D8.1.1 ENSEMBL cdna:known chromosome:CEL140:X:3567155:3572527:-1 gene:F59D8.1 11/11 A 
F59D8.1.3 ENSEMBL cdna:known chromosome:CEL140:X:3567396:3572527:-1 gene:F59D8.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_076188 6/11 Cross Hyb Matching Probes A 
GENEFINDER00000029426 6/11 Cross Hyb Matching Probes None
SNAP00000029419 6/11 Cross Hyb Matching Probes None
C04F6.1 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:3403474-3404337(+) 96.31 96.31
chrX:3571655-3572522(-) 100.0 100.0
chrX:3562720-3563947(-) 98.39 98.39
Public Domain and Genome References
Gene Title

Gene Symbol vit-3
vit-4
Ensembl F59D8.2
F59D8.1
Entrez Gene 180646 Entrez gene
180647 Entrez gene
SwissProt Q9N4J2 EMBL-EBI
P18947 EMBL-EBI
WormBase CE20900 Wormbase
CE26817 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGA.4125.1.S1_AT vitellogenin I gga
HG-U133_PLUS_2:239061_AT tetra-peptide repeat homeobox-like hs
HG-U133B:239061_AT tetra-peptide repeat homeobox-like hs
U133_X3P:HS.216699.0.A1_3P_AT tetra-peptide repeat homeobox-like hs
HG-U95E:71466_AT tetra-peptide repeat homeobox-like hs
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6869 lipid transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5319 lipid transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK09074 Vitellogenin structural genes (yolk protein genes) protein 4 [Caenorhabditis elegans] ref|NP_508612.1| VITellogenin structural genes (yolk protein genes) family member (vit-4) [Caenorhabditis elegans] sp|P18947|VIT4_CAEEL Vitellogenin 4 precursor 0.0
blast AAK09075 Vitellogenin structural genes (yolk protein genes) protein 3 [Caenorhabditis elegans] ref|NP_508613.1| VITellogenin structural genes (yolk protein genes) family member (vit-3) [Caenorhabditis elegans] sp|Q9N4J2|VIT3_CAEEL Vitellogenin 3 precursor 0.0
blast AAA83587 Vitellogenin structural genes (yolk protein genes) protein 5 [Caenorhabditis elegans] ref|NP_508589.1| VITellogenin structural genes (yolk protein genes) family member (vit-5) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.2E-42
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 1.2E-40
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 1.2E-40
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.2E-42
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 7.2E-42
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000016190 1 13-35
SNAP00000036909 1 84-106
GENEFINDER00000036913 1 96-118
Sequence
Target Sequence 
>C. ELEGANS:172673_X_AT
aaagagcttcttgagcttccattccgtgctcaaatcagaaatggacttgtttctgagatc
caattttcttccgaagatgccgagtggtccaagaacgccaagagatcgattctcaatctt
ttctctctccgcaagtctgctccagttgatgagatgagccaagatcagaaagatatggaa
tccgacaaagattctcttttcttcaatgttcatgaaaagaccatggaaggagactgcgaa
gtcgcttacaccattgttcaagagggagagaagaccatctacaccaaatctgtcaacttc
gacaaatgcatcactcgcccagagactgcttatggtcttcgttttggatctgagtgcaag
gaatgcgagaaggagggacaatttgtcaagccacaaactgtctacacctacaccttcaag
aacgagaaattgcaagaatctgaggttcattctatttacactttgaatgttaacggacaa
gaggtcgtcaagtctgagactcgctctaaggtcactttcgtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGAGCTTCTTGAGCTTCCATTCC 385 123 316 Antisense
GATGCCGAGTGGTCCAAGAACGCCA 566 413 391 Antisense
GATCGATTCTCAATCTTTTCTCTCT 15 419 419 Antisense
TCCGCAAGTCTGCTCCAGTTGATGA 110 595 443 Antisense
GATTCTCTTTTCTTCAATGTTCATG 13 433 505 Antisense
TGCGAAGTCGCTTACACCATTGTTC 672 583 550 Antisense
ACTTCGACAAATGCATCACTCGCCC 62 105 611 Antisense
ACTCGCCCAGAGACTGCTTATGGTC 672 99 628 Antisense
GCTTATGGTCTTCGTTTTGGATCTG 187 305 643 Antisense
GTCAAGCCACAAACTGTCTACACCT 670 463 700 Antisense
CTCGCTCTAAGGTCACTTTCGTCGA 553 231 815 Antisense
Sequence Source Affymetrix Proprietary Database