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[174105_at]

Description C61264 /REP_DB=TREMBL Accession /GB=C61264 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk238a5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 19      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 90      6grp_total > 29      4grp_total > 60      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 195
(3)
P 		163.6
(1.1)
P 		191.9
(2.8)
P 		94.6
(-3)
P 		100
B 113.1
(-0.7)
P 		149.8
(3)
P 		90.4
(-3)
P 		139.5
(2)
P 		59
C 143.4
(-1.8)
P 		130.2
(-2.7)
P 		211.8
(3)
P 		126.2
(-3)
P 		86
avr 150.5
(1.1) 		147.9
(0.7) 		164.7
(3) 		120.1
(-3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 138
1 2 3 4 5 6 range
A 183.4
(1)
P 		230.2
(3)
P 		92.3
(-3)
P 		161.4
(0)
P 		206.1
(2)
P 		156.4
(-0.2)
P 		138
B 175.8
(2.8)
P 		121.8
(-2.6)
P 		117.8
(-3)
P 		155.1
(0.7)
P 		178
(3)
P 		170.1
(2.2)
P 		60
C 166
(1.3)
P 		181.5
(3)
P 		165.5
(1.3)
P 		126.6
(-3)
P 		128.4
(-2.8)
P 		130
(-2.6)
P 		55
avr 175.1
(2.7) 		177.8
(3) 		125.2
(-3) 		147.7
(-0.4) 		170.8
(2.2) 		152.2
(0.1) 		53
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 71
(3)
P 		35.5
(-0.7)
P 		50.2
(0.8)
P 		13.8
(-3)
P 		57
B 36.1
(2.7)
P 		37
(3)
P 		20.9
(-3)
P 		29.7
(0.3)
P 		16
C 47.5
(-0)
P 		37.4
(-1.2)
P 		73.8
(3)
P 		21.3
(-3)
P 		53
avr 51.5
(3) 		36.6
(0) 		48.3
(2.4) 		21.6
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 33.8
(-1.7)
P 		81.9
(3)
P 		20.1
(-3)
P 		40.9
(-1)
P 		62.2
(1.1)
P 		38.1
(-1.3)
P 		62
B 61.2
(1.5)
P 		40.5
(-1.4)
P 		28.6
(-3)
P 		41.1
(-1.3)
P 		72.3
(3)
P 		63.4
(1.8)
P 		44
C 61.5
(3)
P 		55.4
(2)
P 		42.1
(-0.2)
P 		25.5
(-3)
P 		41.5
(-0.3)
P 		43.5
(0)
P 		36
avr 52.2
(1.5) 		59.3
(3) 		30.3
(-3) 		35.8
(-1.9) 		58.7
(2.9) 		48.3
(0.7) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174105_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22400
Sequence Type Exemplar sequence
Representative Public ID C61264 NCBI
Target Description C61264 /REP_DB=TREMBL Accession /GB=C61264 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk238a5 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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
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:1027692-1028027(-) 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 AAB07562 Hypothetical protein F55A4.4 [Caenorhabditis elegans] ref|NP_508195.1| F55A4.4 [Caenorhabditis elegans] 4.0E-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
Sequence
Target Sequence 
>C. ELEGANS:174105_AT
ctccaagtccgtacggcaaccaaagaattataagatacagttaatacagtttttcataat
gcaattcaattttccaaaccccatctctctacaagtctttaaaaattcccctaatgtaat
acaaacacgcggttttctcattcatctggccttagaatcctttttataaacaaaatacta
attttctgtgaaacagtagattcatgtcccctctcccccattcctgtgtgtttttttttg
aaaaagtttgcttttccaaattcatatcttgtcttttgttaaatatgccttttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCCAAGTCCGTACGGCAACCAAAG 382 37 18 Antisense
GATACAGTTAATACAGTTTTTCATA 408 423 51 Antisense
CCCATCTCTCTACAAGTCTTTAAAA 349 233 97 Antisense
ATTCCCCTAATGTAATACAAACACG 650 5 122 Antisense
CAAACACGCGGTTTTCTCATTCATC 657 191 139 Antisense
TTTTCTCATTCATCTGGCCTTAGAA 19 677 150 Antisense
TCTGGCCTTAGAATCCTTTTTATAA 59 607 162 Antisense
AAACAGTAGATTCATGTCCCCTCTC 126 129 208 Antisense
AAGTTTGCTTTTCCAAATTCATATC 370 157 261 Antisense
TTTCCAAATTCATATCTTGTCTTTT 75 669 270 Antisense
TGTCTTTTGTTAAATATGCCTTTTT 195 559 287 Antisense
Sequence Source Affymetrix Proprietary Database