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[177081_at]

Description Y55F3BR.L /REP_DB=WormBase Gene ID /WP=CE26188 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59610.1
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 49      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 81      6grp_total > 39      4grp_total > 60      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 201
1 2 3 4 range
A 299.4
(0.1)
P 		386
(3)
P 		324.6
(1)
P 		204.8
(-3)
P 		181
B 323.6
(1.3)
P 		317.7
(1.1)
P 		377.6
(3)
P 		184.8
(-3)
P 		193
C 347.7
(2.9)
P 		240.7
(-1.1)
P 		350.3
(3)
P 		191.7
(-3)
P 		159
avr 323.6
(2) 		314.8
(1.6) 		350.8
(3) 		193.8
(-3) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 166
1 2 3 4 5 6 range
A 294.6
(-1)
P 		387.5
(3)
P 		247.5
(-3)
P 		306.4
(-0.5)
P 		251.1
(-2.8)
P 		317.9
(0)
P 		140
B 290.8
(0.1)
P 		232.4
(-3)
P 		247.5
(-2.2)
P 		303.4
(0.8)
P 		343.9
(3)
P 		315.7
(1.5)
P 		112
C 351.8
(2.6)
P 		221.4
(-3)
P 		288.1
(-0.1)
P 		237.5
(-2.3)
P 		361.2
(3)
P 		268.9
(-1)
P 		140
avr 312.4
(2.3) 		280.4
(-1) 		261
(-3) 		282.4
(-0.8) 		318.7
(3) 		300.8
(1.1) 		58
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 109
(3)
P 		83.8
(1.1)
P 		84.9
(1.2)
P 		30
(-3)
P 		79
B 103.2
(3)
P 		78.5
(0.7)
P 		87.5
(1.5)
P 		39.4
(-3)
P 		64
C 115.1
(2.5)
P 		69.2
(-0.5)
P 		122.1
(3)
P 		32.3
(-3)
P 		90
avr 109.1
(3) 		77.2
(0.5) 		98.2
(2.1) 		33.9
(-3) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 54.3
(-3)
P 		137.8
(3)
P 		53.9
(-3)
P 		77.7
(-1.3)
P 		75.8
(-1.4)
P 		77.4
(-1.3)
P 		84
B 101.2
(0.1)
P 		77.4
(-1.7)
P 		60.1
(-3)
P 		80.4
(-1.5)
P 		139.7
(3)
P 		117.7
(1.3)
P 		80
C 130.4
(3)
P 		67.5
(-1.6)
P 		73.3
(-1.1)
P 		47.8
(-3)
P 		116.9
(2)
P 		90
(0.1)
P 		83
avr 95.3
(1.1) 		94.2
(0.9) 		62.4
(-3) 		68.6
(-2.2) 		110.8
(3) 		95
(1) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177081_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19265
Sequence Type Exemplar sequence
Representative Public ID Y55F3BR.L NCBI
Target Description Y55F3BR.L /REP_DB=WormBase Gene ID /WP=CE26188 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59610.1
Cluster Evidence This cluster is supported by a 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_067603(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067603 NCBI Caenorhabditis elegans Y55F3BR.1 (Y55F3BR.1) mRNA, complete cds. 11/11 A 
Y55F3BR.1 ENSEMBL cdna:known chromosome:CEL140:IV:874920:881908:1 gene:Y55F3BR.1 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
chrIV:874987-879900(+) 97.09 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3BR.1
Entrez Gene 176913 Entrez gene
SwissProt Q9N341 EMBL-EBI
WormBase CE29884 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1606189_X_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 cfa
CANINE:1587751_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 cfa
CANINE_2:CFA.14850.1.S1_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 cfa
CANINE_2:CFAAFFX.6502.1.S1_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 cfa
DROSOPHILA_2:1639264_AT Dead-box-1 dm
DROSGENOME1:141634_AT Dead-box-1 dm
CHICKEN:GGA.12163.1.S1_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 gga
CHICKEN:GGA.14606.1.S1_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 gga
HG-U133A_2:201241_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
HG-U133A:201241_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
HG-U133_PLUS_2:201241_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
HG-FOCUS:201241_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
HUGENEFL:X70649_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
U133_X3P:G4826685_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
HG-U95AV2:37663_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 hs
MU11KSUBA:AA034627_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MU11KSUBB:MSA.42173.0_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MU11KSUBB:MSA.3917.0_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MG-U74AV2:93257_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MG-U74AV2:161386_F_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MG-U74CV2:167904_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MG-U74CV2:171166_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MG-U74CV2:169128_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOE430A:1415915_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOUSE430A_2:1415915_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOUSE430_2:1415915_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOE430B:1440816_X_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOUSE430_2:1440816_X_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 mm
MOUSE430_2:1443098_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 (Ddx1), mRNA mm
MOE430B:1443098_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 (Ddx1), mRNA mm
RG-U34C:RC_AI172325_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 rn
RAE230A:1373319_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 rn
RAT230_2:1373319_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF59610 Hypothetical protein Y55F3BR.1 [Caenorhabditis elegans] ref|NP_500004.2| Y55F3BR.1 [Caenorhabditis elegans] 0.0
blast CAE68293 Hypothetical protein CBG13978 [Caenorhabditis briggsae] 0.0
blast XP_392325 PREDICTED: similar to ENSANGP00000010668 [Apis mellifera] 1.0E-169
Protein Domains
Database ID Description E-Value
Pfam IPR003877 EMBL-EBI SPla/RYanodine receptor SPRY 7.6E-24
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.1E-28
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 3.4E-17
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 3.4E-24
Sequence
Target Sequence 
>C. ELEGANS:177081_AT
aaactggctgtgatattgtcgtcggtaccccatctcgcgttttcgatctcattcataccg
ggaagttggccacaaaaaatctccaattcgttgtaatcgatgagattgatcagtttttgg
ctggaaaaaataattgtgcgcatcaaatcgagtccatattcagagttctgccgttggtgg
ctcaggatggaacgaggcgacaggtgatcgcgtgctcggcaactcttcacaatttcgaag
tctgccgtttcgcagaccgtcacatgtcatttccccaatggattgatctaaaaggagcag
attgtgtgtctgcagacgtacatcatgtcgtctgtcatgttgatgcttctgaagacaaac
aatggatccgtcagatgcatcagcaggtccatcttgaagatgatcacgtacacgatggag
atcaaattcgcccgggaaccactgacaaggacacgatatcgctaggaactaagattctca
aggggatctatgttgtccgagcaattcacgcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACTGGCTGTGATATTGTCGTCGG 564 127 1079 Antisense
TCTCGCGTTTTCGATCTCATTCATA 464 611 1111 Antisense
TGTGCGCATCAAATCGAGTCCATAT 305 557 1213 Antisense
TCAGAGTTCTGCCGTTGGTGGCTCA 434 623 1238 Antisense
GAGGCGACAGGTGATCGCGTGCTCG 23 407 1272 Antisense
GAAGTCTGCCGTTTCGCAGACCGTC 560 333 1315 Antisense
TCGCAGACCGTCACATGTCATTTCC 629 599 1328 Antisense
GTCGTCTGTCATGTTGATGCTTCTG 465 473 1405 Antisense
AATGGATCCGTCAGATGCATCAGCA 319 163 1439 Antisense
ATGGAGATCAAATTCGCCCGGGAAC 47 51 1493 Antisense
TATGTTGTCCGAGCAATTCACGCAC 639 655 1567 Antisense
Sequence Source Affymetrix Proprietary Database