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[183302_at]

Description F55A4.5 /REP_DB=WormBase Gene ID /WP=CE11107 /TR=Q94239 /GB=AAB07566.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 20      4grp_total > 11      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 125
1 2 3 4 range
A 198.9
(-1.9)
A 		267.9
(1.5)
A 		177.2
(-3)
A 		298.5
(3)
M 		121
B 243.7
(3)
A 		186.7
(-3)
A 		208.4
(-0.7)
A 		228.9
(1.4)
A 		57
C 187.2
(-3)
A 		195
(-2.6)
A 		192.6
(-2.7)
M 		301.9
(3)
A 		115
avr 209.9
(-1.8) 		216.5
(-1.3) 		192.7
(-3) 		276.4
(3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 272.4
(1.5)
A 		297.5
(3)
M 		196.2
(-3)
A 		255.4
(0.5)
P 		235.8
(-0.7)
A 		250.5
(0.2)
A 		101
B 205.8
(-2.5)
M 		236.4
(-0.5)
A 		289.4
(3)
A 		207.6
(-2.4)
A 		199.6
(-2.9)
M 		198.1
(-3)
P 		91
C 181.4
(-1.2)
P 		246.6
(2.3)
A 		258.6
(3)
A 		166.9
(-2)
A 		240
(2)
P 		148.7
(-3)
A 		110
avr 219.9
(-1) 		260.2
(3) 		248.1
(1.8) 		210
(-1.9) 		225.1
(-0.4) 		199.1
(-3) 		61
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 72.4
(3)
A 		58.1
(0)
A 		46.3
(-2.5)
A 		43.7
(-3)
M 		29
B 77.7
(3)
A 		46.1
(-3)
A 		48.3
(-2.6)
A 		48.8
(-2.5)
A 		32
C 62
(1.1)
A 		56.1
(-1.1)
A 		67.1
(3)
M 		50.9
(-3)
A 		16
avr 70.7
(3) 		53.4
(-1.5) 		53.9
(-1.4) 		47.8
(-3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 50.2
(-2.3)
A 		105.8
(3)
M 		42.7
(-3)
A 		64.8
(-0.9)
P 		71.2
(-0.3)
A 		61
(-1.3)
A 		63
B 71.6
(0.8)
M 		78.7
(2.4)
A 		70.3
(0.5)
A 		55
(-3)
A 		81.1
(3)
M 		73.9
(1.3)
P 		26
C 67.2
(1.6)
P 		75.2
(2.7)
A 		65.8
(1.4)
A 		33.6
(-3)
A 		77.6
(3)
P 		49.8
(-0.8)
A 		44
avr 63
(-1) 		86.6
(3) 		59.6
(-1.6) 		51.1
(-3) 		76.6
(1.3) 		61.6
(-1.2) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183302_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18385
Sequence Type Exemplar sequence
Representative Public ID F55A4.5 NCBI
Target Description F55A4.5 /REP_DB=WormBase Gene ID /WP=CE11107 /TR=Q94239 /GB=AAB07566.1 /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_075795(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075795 NCBI Caenorhabditis elegans F55A4.5 (F55A4.5) mRNA, complete cds. 11/11 None
SNAP00000039512 ENSEMBL cdna:SNAP chromosome:CEL140:X:1028134:1031113:-1 11/11 None
GENEFINDER00000039521 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1028134:1035183:-1 11/11 None
F55A4.5 ENSEMBL cdna:known chromosome:CEL140:X:1027670:1035241:-1 gene:F55A4.5 11/11 A 
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
chrX:1028133-1035183(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F55A4.5
Entrez Gene 180455 Entrez gene
SwissProt Q94239 EMBL-EBI
WormBase CE11107 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1603503_X_AT similar to Double-stranded RNA-binding protein Staufen homolog cfa
CANINE:1587342_AT similar to Double-stranded RNA-binding protein Staufen homolog cfa
CANINE_2:CFA.11567.2.S1_AT similar to Double-stranded RNA-binding protein Staufen homolog cfa
CANINE_2:CFAAFFX.17687.1.S1_S_AT similar to Double-stranded RNA-binding protein Staufen homolog cfa
DROSOPHILA_2:1633016_A_AT staufen dm
DROSGENOME1:151638_S_AT staufen dm
DROSGENOME1:142592_AT staufen dm
CHICKEN:GGA.12446.1.S1_S_AT staufen, RNA binding protein (Drosophila) gga
CHICKEN:GGA.17237.1.S1_S_AT staufen, RNA binding protein (Drosophila) gga
HG-U133_PLUS_2:207320_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A:207320_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A_2:207320_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U133_PLUS_2:211505_S_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A:211505_S_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A_2:211505_S_AT staufen, RNA binding protein (Drosophila) hs
HG-U133_PLUS_2:208948_S_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A:208948_S_AT staufen, RNA binding protein (Drosophila) hs
HG-FOCUS:208948_S_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A_2:208948_S_AT staufen, RNA binding protein (Drosophila) hs
HU35KSUBA:RC_AA135106_AT staufen, RNA binding protein (Drosophila) hs
U133_X3P:G13276702_3P_A_AT staufen, RNA binding protein (Drosophila) hs
U133_X3P:HS.6113.5.A1_3P_A_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A_2:213037_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U133_PLUS_2:213037_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U133A:213037_X_AT staufen, RNA binding protein (Drosophila) hs
HG-U95AV2:41823_AT staufen, RNA binding protein (Drosophila) hs
U133_X3P:HS2.385730.1.S1_3P_X_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
U133_X3P:HS2.385730.1.S1_3P_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
U133_X3P:1569527_3P_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
HG-U133_PLUS_2:1569527_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
HG-U95C:58652_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
HG-U95D:82340_AT Actin related protein 2/3 complex, subunit 3, 21kDa hs
MOE430A:1435347_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430A_2:1435347_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430_2:1435347_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MG-U74BV2:111089_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MG-U74BV2:117300_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOE430A:1450741_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430A_2:1450741_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430_2:1450741_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOE430A:1422766_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430A_2:1422766_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MOUSE430_2:1422766_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MG-U74AV2:103872_R_AT staufen (RNA binding protein) homolog 1 (Drosophila) mm
MG-U74BV2:105560_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MG-U74CV2:166865_F_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MU19KSUBA:TC17906_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MU19KSUBA:TC24560_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MU19KSUBA:TC25394_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MU19KSUBA:TC25394_G_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
MU19KSUBB:TC26889_AT Staufen (RNA binding protein) homolog 1 (Drosophila), mRNA (cDNA clone MGC:13708 IMAGE:4188394) mm
RG-U34C:RC_AI102263_AT staufen RNA binding protein homolog 1 (Drosophila) rn
RAE230A:1387051_AT staufen RNA binding protein homolog 1 (Drosophila) rn
RAT230_2:1387051_AT staufen RNA binding protein homolog 1 (Drosophila) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3725 double-stranded RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB07566 Hypothetical protein F55A4.5 [Caenorhabditis elegans] ref|NP_508196.1| F55A4.5 [Caenorhabditis elegans] 0.0
blast CAE63582 Hypothetical protein CBG08071 [Caenorhabditis briggsae] 0.0
blast CAE63582 Hypothetical protein CBG08071 [Caenorhabditis briggsae] 1.0E-179
blast CAE63582 Hypothetical protein CBG08071 [Caenorhabditis briggsae] 1.0E-170
blast NP_508197 F55A4.6 [Caenorhabditis elegans] 1.0E-165
blast AAB07562 Hypothetical protein F55A4.4 [Caenorhabditis elegans] ref|NP_508195.1| F55A4.4 [Caenorhabditis elegans] 3.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 2.3E-17
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 4.0E-11
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 3.2E-15
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 5.7E-21
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 4.0E-11
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 3.2E-15
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 5.7E-21
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-9
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 4.0E-11
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 3.2E-15
Pfam IPR001159 EMBL-EBI Double-stranded RNA binding (DsRBD) domain 5.7E-21
Sequence
Target Sequence 
>C. ELEGANS:183302_AT
tgatccttccctgccagaaatttctcactggactggtcctccgccaacggcagtttcggt
ttcgacgagcgagcccgacacgtctgaagcagcacaactatcaccggagcagacggatat
cagtgagaagagagaactttcaccggatacagaaaaacgaagagttacttttaactctca
agtacatgcttgtcctcctccaggcgatcaagactacccgaattcaattgttcaatcact
caagaaagatgcaattgtcgaaggcaaaatccgccggctcaagaggtccaaagaaaaccg
aagagctttaactgctgagcaaattgtggaactttccgaaagagctcaatcctacctgca
aacaaaaaacacgacgattcaaagttcacaatcatcatccgcccatcaccatctggagca
gctgtccgacttcttcaagttcagcttacaatacacaagctttccacaagttggcattga
tcagcactttacaatcgtgtcaataggacttgaagcaccactggttggacatggtaccgg
ttgcagcaccactgaagctgatgagaatgcagcgcttgacgctattgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCCTTCCCTGCCAGAAATTTCT 155 565 1509 Antisense
GAAATTTCTCACTGGACTGGTCCTC 706 361 1525 Antisense
GCAGTTTCGGTTTCGACGAGCGAGC 6 311 1558 Antisense
CCGACACGTCTGAAGCAGCACAACT 414 263 1583 Antisense
CAGCACAACTATCACCGGAGCAGAC 536 203 1598 Antisense
TCTCAAGTACATGCTTGTCCTCCTC 357 613 1684 Antisense
TCGAAGGCAAAATCCGCCGGCTCAA 61 601 1766 Antisense
TTCCGAAAGAGCTCAATCCTACCTG 58 685 1842 Antisense
AGGACTTGAAGCACCACTGGTTGGA 203 55 2013 Antisense
GTTGGACATGGTACCGGTTGCAGCA 182 437 2032 Antisense
GAATGCAGCGCTTGACGCTATTGCT 277 331 2073 Antisense
Sequence Source Affymetrix Proprietary Database