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[172696_x_at]

Description C04F6.1 /REP_DB=WormBase Gene ID /WP=CE03921 /GEN=vit-5 /TR=SW:P06125 /GB=AAA83587.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 99      4grp_total > 08      6grp_cgc > 79      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 9.5
(-2.9)
A 		8.2
(-3)
A 		18.9
(-2.2)
A 		93.2
(3)
A 		85
B 11.3
(-3)
A 		15
(-2.7)
A 		18.3
(-2.5)
A 		90.5
(3)
A 		79
C 17.7
(-3)
A 		21.1
(-2.6)
A 		47.1
(0.6)
A 		66.6
(3)
A 		49
avr 12.8
(-3) 		14.8
(-2.8) 		28.1
(-1.7) 		83.4
(3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7145
1 2 3 4 5 6 range
A 10.1
(-3)
A 		4.6
(-3)
A 		7.2
(-3)
A 		6.3
(-3)
A 		7149.3
(3)
P 		5879.7
(1.9)
P 		7145
B 4.4
(-3)
A 		5.4
(-3)
A 		6.4
(-3)
A 		19.5
(-3)
A 		5451.3
(2)
P 		6508.6
(3)
P 		6504
C 8.9
(-3)
A 		4.6
(-3)
A 		10.7
(-3)
A 		22.7
(-3)
A 		6818.8
(3)
P 		6509.4
(2.7)
P 		6814
avr 7.8
(-3) 		4.9
(-3) 		8.1
(-3) 		16.2
(-3) 		6473.1
(3) 		6299.2
(2.8) 		6468
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 3.5
(-2.1)
A 		1.8
(-3)
A 		4.9
(-1.4)
A 		13.6
(3)
A 		12
B 3.6
(-3)
A 		3.7
(-3)
A 		4.2
(-2.8)
A 		19.3
(3)
A 		16
C 5.9
(-3)
A 		6.1
(-2.9)
A 		16.4
(3)
A 		11.2
(0)
A 		11
avr 4.3
(-2.8) 		3.9
(-3) 		8.5
(-0.4) 		14.7
(3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2426
1 2 3 4 5 6 range
A 1.9
(-3)
A 		1.6
(-3)
A 		1.6
(-3)
A 		1.6
(-3)
A 		2157.3
(3)
P 		1431.5
(1)
P 		2156
B 1.5
(-3)
A 		1.8
(-3)
A 		1.6
(-3)
A 		5.2
(-3)
A 		2214.8
(2.5)
P 		2427
(3)
P 		2426
C 3.3
(-3)
A 		1.4
(-3)
A 		2.7
(-3)
A 		4.6
(-3)
A 		2206.5
(3)
P 		2179.1
(2.9)
P 		2205
avr 2.2
(-3) 		1.6
(-3) 		2
(-3) 		3.8
(-3) 		2192.9
(3) 		2012.5
(2.5) 		2191
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172696_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18208
Sequence Type Exemplar sequence
Representative Public ID C04F6.1 NCBI
Target Description C04F6.1 /REP_DB=WormBase Gene ID /WP=CE03921 /GEN=vit-5 /TR=SW:P06125 /GB=AAA83587.1 /SUBMIT=ST.LOUIS /CHR=X /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_076188(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076188 NCBI Caenorhabditis elegans VITellogenin structural genes (yolk protein genes) family member (vit-5) (vit-5) mRNA, complete cds. 11/11 None
GENEFINDER00000029426 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3401998:3408542:1 11/11 None
SNAP00000029419 ENSEMBL cdna:SNAP chromosome:CEL140:X:3403468:3408542:1 11/11 None
C04F6.1 ENSEMBL cdna:known chromosome:CEL140:X:3403468:3408795:1 gene:C04F6.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_076211 6/11 Cross Hyb Matching Probes A 
NM_076212 5/11 Cross Hyb Matching Probes A 
SNAP00000016179 5/11 Cross Hyb Matching Probes None
GENEFINDER00000016190 5/11 Cross Hyb Matching Probes None
SNAP00000036909 6/11 Cross Hyb Matching Probes None
GENEFINDER00000036913 6/11 Cross Hyb Matching Probes None
F59D8.2 6/11 Cross Hyb Matching Probes A 
F59D8.1.2 5/11 Cross Hyb Matching Probes A 
F59D8.1.1 5/11 Cross Hyb Matching Probes A 
F59D8.1.3 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:3403468-3408543(+) 100.0 100.0
chrX:3558881-3572528(-) 97.94 97.94
chrX:3567446-3571257(-) 74.46 74.46
Public Domain and Genome References
Gene Title
Gene Symbol vit-5
Ensembl C04F6.1
Entrez Gene 180630 Entrez gene
SwissProt P06125 EMBL-EBI
WormBase CE03921 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 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
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 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
Protein Domains
Database ID Description E-Value
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 5.2E-41
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Pfam IPR001846 EMBL-EBI von Willebrand factor, type D 5.2E-41
Pfam IPR001747 EMBL-EBI Lipid transport protein, N-terminal 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000029426 1 75-97
Sequence
Target Sequence 
>C. ELEGANS:172696_X_AT
accttattgttattcgtcttccacaaggagaggttcgtttcgatggatacactgtcaaga
ccaacatgccatccgttgcttcacaaaaccaactttgcggactttgcggaaacaatgacg
gtgagagagacaatgagttcatgaccgctgacaactacgaaactgaggatgttgaggaat
tccaccggtcttaccttctcaagaatgaggaatgcgaagttgagaacgaccgcatctccg
agaagaagaactacagaaacaaatggaacagagaagagaagaagtccgactacgagagca
gctccgactacgagagcaactacgatgagaaggaaactgagaaggaactcgtcaagaaga
ccctcatcaaggagttctccaaccgcgtctgcttctccatcgagccagtctctgagtgcc
gccgtggactcgaatccgagaagacttccaacaagaagattcgtttcacttgcatgccac
gccacagcaagaacgctcgtcgtttcttgaaggaagctcgtgagcaaactgttgccgagt
tggtcgatttccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCTTATTGTTATTCGTCTTCCACA 567 87 4220 Antisense
AAGACCAACATGCCATCCGTTGCTT 692 153 4276 Antisense
GTTCATGACCGCTGACAACTACGAA 63 445 4356 Antisense
TTGAGAACGACCGCATCTCCGAGAA 114 683 4439 Antisense
AGAAGTCCGACTACGAGAGCAGCTC 348 75 4499 Antisense
GGAACTCGTCAAGAAGACCCTCATC 391 529 4563 Antisense
GACCCTCATCAAGGAGTTCTCCAAC 43 383 4578 Antisense
GAAGATTCGTTTCACTTGCATGCCA 524 337 4674 Antisense
CCACAGCAAGAACGCTCGTCGTTTC 361 275 4701 Antisense
AACGCTCGTCGTTTCTTGAAGGAAG 555 145 4711 Antisense
TGTTGCCGAGTTGGTCGATTTCCCA 106 563 4749 Antisense
Sequence Source Affymetrix Proprietary Database