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[177636_at]

Description F53B8.1 /REP_DB=WormBase Gene ID /WP=CE16102 /TR=O45555 /GB=CAB07213.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 71      4grp_total > 51      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 37.7
(2.4)
A 		31.4
(1.4)
A 		41.7
(3)
A 		3.6
(-3)
A 		38
B 50.4
(2)
A 		60.2
(3)
A 		41.3
(1)
A 		2.1
(-3)
A 		58
C 4.5
(-2.8)
A 		65.8
(3)
A 		38.9
(0.5)
A 		1.9
(-3)
A 		64
avr 30.9
(0.4) 		52.5
(3) 		40.6
(1.6) 		2.5
(-3) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 33.3
(-0.4)
A 		47.9
(0.9)
A 		20.9
(-1.5)
A 		71.4
(3)
A 		5
(-2.9)
A 		3.8
(-3)
A 		68
B 13.8
(-0.6)
A 		19.5
(0.7)
A 		3.5
(-3)
A 		3.3
(-3)
A 		29.7
(3)
A 		29.1
(2.9)
A 		26
C 29.6
(-0.2)
A 		4.3
(-3)
A 		58.7
(3)
A 		13
(-2)
A 		46.1
(1.6)
A 		5.4
(-2.9)
A 		54
avr 25.6
(1.7) 		23.9
(1.1) 		27.7
(2.5) 		29.2
(3) 		26.9
(2.2) 		12.8
(-3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 13.7
(3)
A 		6.8
(-0.1)
A 		10.9
(1.7)
A 		0.5
(-3)
A 		13
B 16.1
(3)
A 		14.9
(2.5)
A 		9.6
(0.5)
A 		0.4
(-3)
A 		16
C 1.5
(-2.6)
A 		18.9
(3)
A 		13.6
(1.3)
A 		0.3
(-3)
A 		19
avr 10.4
(1.6) 		13.5
(3) 		11.4
(2) 		0.4
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 6.1
(-1.2)
A 		17
(2.6)
A 		4.5
(-1.7)
A 		18.1
(3)
A 		1.5
(-2.8)
A 		0.9
(-3)
A 		17
B 4.8
(-0.9)
A 		6.5
(-0)
A 		0.9
(-3)
A 		0.9
(-3)
A 		12.1
(3)
A 		10.8
(2.3)
A 		11
C 11
(1.2)
A 		1.3
(-3)
A 		15
(3)
A 		2.6
(-2.4)
A 		14.9
(3)
A 		1.8
(-2.8)
A 		14
avr 7.3
(0.4) 		8.3
(1.6) 		6.8
(-0.2) 		7.2
(0.2) 		9.5
(3) 		4.5
(-3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177636_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1607
Sequence Type Exemplar sequence
Representative Public ID F53B8.1 NCBI
Target Description F53B8.1 /REP_DB=WormBase Gene ID /WP=CE16102 /TR=O45555 /GB=CAB07213.1 /SUBMIT=HINXTON /CHR=1 /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_001026316(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026316 NCBI Caenorhabditis elegans F53B8.1 (F53B8.1) mRNA, complete cds. 11/11 None
GENEFINDER00000024435 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11784461:11792061:-1 9/11 None
SNAP00000024433 ENSEMBL cdna:SNAP chromosome:CEL140:I:11790700:11792061:-1 9/11 None
F53B8.1 ENSEMBL cdna:known chromosome:CEL140:I:11791036:11792061:-1 gene:F53B8.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
C29A12.2 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11790966-11791992(-) 80.21 100.0
Public Domain and Genome References
Gene Title
Ensembl F53B8.1
Entrez Gene 3564866 Entrez gene
SwissProt Q7YXD8 EMBL-EBI
WormBase CE16102 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD44516 VAB-10B protein [Caenorhabditis elegans] 0.0
blast CAD44515 VAB-10A protein [Caenorhabditis elegans] 0.0
blast CAD44514 VAB-10A protein [Caenorhabditis elegans] 0.0
blast CAB07213 Hypothetical protein F53B8.1 [Caenorhabditis elegans] ref|NP_001021487.1| F53B8.1 [Caenorhabditis elegans] 5.0E-84
blast CAB07213 Hypothetical protein F53B8.1 [Caenorhabditis elegans] ref|NP_001021487.1| F53B8.1 [Caenorhabditis elegans] 3.0E-67
blast CAE69592 Hypothetical protein CBG15814 [Caenorhabditis briggsae] 1.0E-15
Protein Domains
Database ID Description E-Value
scop a.4.1.Centromere-binding All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Centromere-binding 6.80000019073486
Pfam IPR001715 EMBL-EBI Calponin-like actin-binding 1.6E-34
Sequence
Target Sequence 
>C. ELEGANS:177636_AT
cgtgcgaccattgcgattcgtacgtttggcatgcgacatcgtgtctagccacaacagcat
tattactattcggacttgcaaccactctgacaatgcttaaagtggtgcgaagttattcga
aaaaagcggagcgaaaatccgagagctctagagcctcggctcaaggaggaagccagcagg
cgatcagtggtggtggaggagccggagccggaggtggtggaaactctagctactatgagg
agtactcgagcagaaatggagccgccggcgggaatggacatgttggaaatggtggtggac
aaatcattcatcatgcacacaatcagcacttgtccaatgctcagcaggcacacggtggat
tctcggagagctcgagctacgagacccgcgagcactttgagcgaaaggtgcaacgagtga
agaagacacgtggagaacgagaaagatctcggtctggcaagagagacgacgtgagttttt
tttttcgtcgtgcacacttttttaaaactttcctctggctaaattgccgtatttcctcta
ttagtagtgcacctcattgctcaactttgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTGCGACCATTGCGATTCGTACGT 355 243 434 Antisense
GTACGTTTGGCATGCGACATCGTGT 307 457 453 Antisense
GACATCGTGTCTAGCCACAACAGCA 660 367 468 Antisense
TACTATTCGGACTTGCAACCACTCT 618 645 497 Antisense
CCGAGAGCTCTAGAGCCTCGGCTCA 592 263 572 Antisense
AGCACTTGTCCAATGCTCAGCAGGC 343 77 758 Antisense
GCACACGGTGGATTCTCGGAGAGCT 434 317 781 Antisense
GGAGAGCTCGAGCTACGAGACCCGC 491 519 798 Antisense
GACCCGCGAGCACTTTGAGCGAAAG 353 381 816 Antisense
AATTGCCGTATTTCCTCTATTAGTA 48 179 955 Antisense
TGCACCTCATTGCTCAACTTTGACA 608 577 981 Antisense
Sequence Source Affymetrix Proprietary Database