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[178945_s_at]

Description F53B6.4 /REP_DB=WormBase Gene ID /WP=CE10896 /TR=Q9XVN1 /GB=CAB03117.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 78      4grp_total > 18      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 3.2
(-3)
A 		9
(3)
A 		6.7
(0.6)
A 		7.2
(1.1)
A 		6
B 5.8
(3)
A 		4.8
(0.9)
A 		2.9
(-3)
A 		4.2
(-0.3)
A 		3
C 3.3
(-2.4)
A 		2.5
(-3)
A 		2.8
(-2.8)
A 		10.1
(3)
A 		8
avr 4.1
(-3) 		5.4
(-0.5) 		4.1
(-3) 		7.2
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 623
1 2 3 4 5 6 range
A 4.9
(-3)
A 		2.3
(-3)
A 		4.4
(-3)
A 		26.1
(-2.8)
A 		195.4
(-1.1)
P 		625.2
(3)
P 		623
B 3.1
(-3)
A 		3.1
(-3)
A 		3.8
(-3)
A 		6.5
(-3)
A 		220
(-0.6)
P 		536.6
(3)
P 		534
C 2.9
(-3)
A 		3.2
(-3)
A 		3.2
(-3)
A 		13.9
(-2.9)
A 		208.6
(-0.8)
P 		560.7
(3)
P 		558
avr 3.6
(-3) 		2.9
(-3) 		3.8
(-3) 		15.5
(-2.9) 		208
(-0.8) 		574.2
(3) 		571
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 1.2
(-2.3)
A 		1.9
(3)
A 		1.8
(2.3)
A 		1.1
(-3)
A 		1
B 1.9
(3)
A 		1.2
(-0.5)
A 		0.7
(-3)
A 		0.9
(-2)
A 		1
C 1.1
(-0.6)
A 		0.7
(-3)
A 		1
(-1.2)
A 		1.7
(3)
A 		1
avr 1.4
(3) 		1.3
(0) 		1.2
(-3) 		1.2
(-3) 		0

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 199
1 2 3 4 5 6 range
A 0.9
(-3)
A 		0.8
(-3)
A 		1
(-3)
A 		6.6
(-2.8)
A 		59
(-0.7)
P 		152.2
(3)
P 		151
B 1.1
(-3)
A 		1
(-3)
A 		0.9
(-3)
A 		1.7
(-3)
A 		89.4
(-0.3)
P 		200.1
(3)
P 		199
C 1.1
(-3)
A 		1
(-3)
A 		0.8
(-3)
A 		2.8
(-2.9)
A 		67.5
(-0.9)
P 		187.7
(3)
P 		187
avr 1
(-3) 		0.9
(-3) 		0.9
(-3) 		3.7
(-2.9) 		72
(-0.6) 		180
(3) 		179
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178945_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1680
Sequence Type Exemplar sequence
Representative Public ID F53B6.4 NCBI
Target Description F53B6.4 /REP_DB=WormBase Gene ID /WP=CE10896 /TR=Q9XVN1 /GB=CAB03117.1 /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_060006(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060006 NCBI Caenorhabditis elegans F53B6.4 (F53B6.4) mRNA, complete cds. 11/11 None
SNAP00000012067 ENSEMBL cdna:SNAP chromosome:CEL140:I:8955533:8956835:-1 11/11 None
GENEFINDER00000012079 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8955533:8956835:-1 11/11 None
F53B6.4 ENSEMBL cdna:known chromosome:CEL140:I:8955504:8956835:-1 gene:F53B6.4 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:8955463-8956766(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F53B6.4
Entrez Gene 172709 Entrez gene
SwissProt Q9XVN1 EMBL-EBI
WormBase CE10896 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03117 Hypothetical protein F53B6.4 [Caenorhabditis elegans] ref|NP_492407.1| F53B6.4 [Caenorhabditis elegans] 1.0E-124
blast CAE66998 Hypothetical protein CBG12397 [Caenorhabditis briggsae] 1.0E-64
blast CAB07588 Hypothetical protein F21H7.5 [Caenorhabditis elegans] ref|NP_507098.1| F21H7.5 [Caenorhabditis elegans] 5.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 9.5E-32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492407.1 1 43-65
F53B6.4 1 43-65
SNAP00000012067 1 43-65
GENEFINDER00000012079 1 43-65
Sequence
Target Sequence 
>C. ELEGANS:178945_S_AT
taccacctctggttctcaagtttcaactgtttccgctgctactggtgtttctgataagca
atctaactcatcgaaatcttctcgtaagagctcaaagagttcgaagagccgtaagaatcg
tcgacttgattcggatgcccagaagaaaatggagaaatcgggaaagagcggcaaagttgc
tcttattccaaaaacgcaacaaacaactggaagccaagttgggcatagccttgctgaaga
agtcaattcgatcaagcactccaaggaaatgaatgtggctcctgctaaacttcaatacca
gacacttggcggagtcaatcaaattgaattgaagaatacttcaaatgaacgtaaagctta
taagatcaagtgctcggataactccctttaccgtgtcaatccggtttatggatttgctga
gccacgttcttccgttaagattgatgtgttgagattgaatggagagcagaaaactgacaa
acttgtgctcttgactgccaatgccaacggctctactaatcctcatgaggcatttgctaa
ccaagcggagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACCACCTCTGGTTCTCAAGTTTCA 627 649 453 Antisense
TCCGCTGCTACTGGTGTTTCTGATA 142 597 484 Antisense
ATCGTCGACTTGATTCGGATGCCCA 406 35 569 Antisense
GCGGCAAAGTTGCTCTTATTCCAAA 533 293 620 Antisense
GCCAAGTTGGGCATAGCCTTGCTGA 619 277 665 Antisense
GTGGCTCCTGCTAAACTTCAATACC 452 491 727 Antisense
TCAAGTGCTCGGATAACTCCCTTTA 95 631 818 Antisense
TATGGATTTGCTGAGCCACGTTCTT 316 655 859 Antisense
TGACAAACTTGTGCTCTTGACTGCC 710 571 927 Antisense
CAACGGCTCTACTAATCCTCATGAG 7 189 957 Antisense
GAGGCATTTGCTAACCAAGCGGAGC 216 405 979 Antisense
Sequence Source Affymetrix Proprietary Database