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[188505_at]

Description C44C8.5 /REP_DB=WormBase Gene ID /WP=CE17544 /CHR=4 /FEA=Sanger Annotation /DEF=helicase (ST.LOUIS) TR:Q9TZ15 protein_id:AAC68943.1
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 58      4grp_highest_8_8 > 33      4grp_high_8_8 > 59      6grp_highest_nonorm > 82      6grp_total > 69      4grp_total > 61      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 156
1 2 3 4 range
A 373.7
(3)
P 		370.9
(2.9)
P 		325.2
(0.8)
P 		241.4
(-3)
P 		132
B 374.4
(2.9)
P 		340.8
(1.5)
P 		377.6
(3)
P 		234.2
(-3)
P 		143
C 374.6
(2.2)
P 		353.6
(1.1)
P 		390.2
(3)
P 		271.6
(-3)
P 		119
avr 374.2
(3) 		355.1
(2.1) 		364.3
(2.5) 		249.1
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 210
1 2 3 4 5 6 range
A 302
(-2.7)
P 		334.7
(3)
P 		333.2
(2.7)
P 		300
(-3)
P 		325.8
(1.5)
P 		330.8
(2.3)
P 		35
B 382.9
(0.5)
P 		358.3
(-0.5)
P 		404.8
(1.4)
P 		296.1
(-3)
P 		386.4
(0.7)
P 		443.4
(3)
P 		147
C 400
(1.5)
P 		363.4
(0.4)
P 		300
(-1.4)
P 		243.6
(-3)
P 		343.9
(-0.1)
P 		453.9
(3)
P 		210
avr 361.6
(0.8) 		352.1
(0.3) 		346
(0.1) 		279.9
(-3) 		352
(0.3) 		409.4
(3) 		130
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 101
1 2 3 4 range
A 136.1
(3)
P 		80.5
(-0.3)
P 		85
(-0)
P 		35.3
(-3)
P 		101
B 119.4
(3)
P 		84.2
(-0)
P 		87.5
(0.2)
P 		49.9
(-3)
P 		70
C 124
(2.2)
P 		101.7
(0.7)
P 		136
(3)
P 		45.8
(-3)
P 		90
avr 126.5
(3) 		88.8
(0.3) 		102.8
(1.3) 		43.7
(-3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 55.7
(-3)
P 		119
(3)
P 		72.6
(-1.4)
P 		76.1
(-1.1)
P 		98.3
(1)
P 		80.5
(-0.6)
P 		63
B 133.2
(0.8)
P 		119.3
(-0.2)
P 		98.3
(-1.6)
P 		78.4
(-3)
P 		157
(2.4)
P 		165.3
(3)
P 		87
C 148.2
(2.8)
P 		110.9
(0.6)
P 		76.4
(-1.4)
P 		49
(-3)
P 		111.3
(0.6)
P 		151.9
(3)
P 		103
avr 112.4
(1.1) 		116.4
(1.5) 		82.4
(-1.6) 		67.8
(-3) 		122.2
(2) 		132.6
(3) 		65
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188505_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10410
Sequence Type Exemplar sequence
Representative Public ID C44C8.5 NCBI
Target Description C44C8.5 /REP_DB=WormBase Gene ID /WP=CE17544 /CHR=4 /FEA=Sanger Annotation /DEF=helicase (ST.LOUIS) TR:Q9TZ15 protein_id:AAC68943.1
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 
SNAP00000021734 ENSEMBL cdna:SNAP chromosome:CEL140:IV:879793:889894:1 11/11 None
GENEFINDER00000021755 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:879793:881835:1 11/11 None
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:879798-881841(+) 100.0 100.0
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 AAK68684 Map kinase activated protein kinase protein 2, isoform b [Caenorhabditis elegans] ref|NP_500006.2| MAP kinase Activated protein Kinase family member (mak-2) [Caenorhabditis elegans] 0.0
blast AAC68944 Map kinase activated protein kinase protein 2, isoform a [Caenorhabditis elegans] ref|NP_500005.1| MAP kinase Activated protein Kinase family member (mak-2) [Caenorhabditis elegans] 0.0
blast CAE68292 Hypothetical protein CBG13977 [Caenorhabditis briggsae] 1.0E-175
blast XP_392325 PREDICTED: similar to ENSANGP00000010668 [Apis mellifera] 1.0E-169
blast AAF59610 Hypothetical protein Y55F3BR.1 [Caenorhabditis elegans] ref|NP_500004.2| Y55F3BR.1 [Caenorhabditis elegans] 1.0E-127
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 4.0E-60
hanks 2.3.1 CaMK Group; CaMK Other; MAPKAP2 7.0E-92
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
Pfam IPR000719 EMBL-EBI Protein kinase 2.0E-74
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.1E-28
Sequence
Target Sequence 
>C. ELEGANS:188505_AT
ttcttcagcagaataatctctcggctgcctgccttcacggtgaccgatcggctgaagaac
gtcaaagttcactggaaggtttcaagaaaggcattattcgattcctggtatgctccgatg
tggtggctcgtggcctcgatgttcaaggagtgccttttgtaatcagtgtgactctgccgg
atgagaaatcaatgtacgtacatcgtatcggacgtgttggacgcgccgaacgtatgggat
tatcgattagtttggtatcggagtacgaggagaaagcatggtatcacaaatgtcggagcc
gaggagtcaattgcacgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTCAGCAGAATAATCTCTCGGC 528 689 71 Antisense
TTCACGGTGACCGATCGGCTGAAGA 23 685 104 Antisense
GAAAGGCATTATTCGATTCCTGGTA 362 361 156 Antisense
ATTCCTGGTATGCTCCGATGTGGTG 162 9 171 Antisense
GTGGCCTCGATGTTCAAGGAGTGCC 120 493 200 Antisense
AGGAGTGCCTTTTGTAATCAGTGTG 204 57 216 Antisense
AATCAGTGTGACTCTGCCGGATGAG 272 171 231 Antisense
GTATCGGACGTGTTGGACGCGCCGA 644 453 275 Antisense
GACGCGCCGAACGTATGGGATTATC 617 379 290 Antisense
GGTATCACAAATGTCGGAGCCGAGG 343 503 350 Antisense
GGAGCCGAGGAGTCAATTGCACGAA 25 523 365 Antisense
Sequence Source Affymetrix Proprietary Database