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[191351_s_at] ATP-dependent RNA helicase

Description C46F11.4 /REP_DB=WormBase Gene ID /WP=CE17559 /TR=Q93382 /GB=CAB03765.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATP-dependent RNA helicase
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_highest_8_8 > 37      4grp_high_8_8 > 0      6grp_highest_nonorm > 81      6grp_total > 47      4grp_total > 07      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 191
1 2 3 4 range
A 271.5
(1)
P 		143.9
(-3)
P 		209.4
(-0.9)
P 		333.2
(3)
P 		189
B 269.3
(0)
P 		201.7
(-3)
P 		232
(-1.6)
P 		335
(3)
P 		133
C 283.8
(3)
P 		156.1
(-3)
P 		270.7
(2.4)
P 		215.7
(-0.2)
P 		128
avr 274.9
(2.1) 		167.2
(-3) 		237.4
(0.3) 		294.6
(3) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 243.9
(1.5)
P 		201.6
(-3)
P 		216.9
(-1.4)
P 		252.9
(2.5)
P 		205.2
(-2.6)
P 		257.4
(3)
P 		56
B 361.1
(1.2)
P 		276.3
(-1.3)
P 		294.9
(-0.7)
P 		258.1
(-1.8)
P 		218.1
(-3)
P 		420.8
(3)
P 		203
C 384.1
(3)
P 		307.6
(0.4)
P 		205.5
(-3)
P 		241.7
(-1.8)
P 		250.8
(-1.5)
P 		337.8
(1.4)
P 		179
avr 329.7
(2.5) 		261.8
(-1) 		239.1
(-2.2) 		250.9
(-1.6) 		224.7
(-3) 		338.7
(3) 		114
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 68
1 2 3 4 range
A 98.8
(3)
P 		31.2
(-3)
P 		54.7
(-0.9)
P 		48.8
(-1.4)
P 		68
B 85.9
(3)
P 		49.8
(-3)
P 		53.8
(-2.3)
P 		71.4
(0.6)
P 		36
C 93.9
(2.9)
P 		44.9
(-2.1)
P 		94.4
(3)
P 		36.4
(-3)
P 		58
avr 92.9
(3) 		42
(-3) 		67.6
(0) 		52.2
(-1.8) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 45
(-3)
P 		71.7
(3)
P 		47.2
(-2.5)
P 		64.1
(1.3)
P 		61.9
(0.8)
P 		62.7
(1)
P 		27
B 125.6
(0.9)
P 		92
(-1.4)
P 		71.6
(-2.8)
P 		68.4
(-3)
P 		88.6
(-1.6)
P 		156.9
(3)
P 		89
C 142.4
(3)
P 		93.8
(-0.1)
P 		52.3
(-2.8)
P 		48.6
(-3)
P 		81.2
(-0.9)
P 		113.1
(1.1)
P 		94
avr 104.3
(2.3) 		85.8
(0.2) 		57
(-3) 		60.4
(-2.6) 		77.2
(-0.8) 		110.9
(3) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191351_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7499
Sequence Type Exemplar sequence
Representative Public ID C46F11.4 NCBI
Target Description C46F11.4 /REP_DB=WormBase Gene ID /WP=CE17559 /TR=Q93382 /GB=CAB03765.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ATP-dependent RNA helicase
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_065342(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065342 NCBI Caenorhabditis elegans C46F11.4 (C46F11.4) mRNA, complete cds. 11/11 None
GENEFINDER00000037476 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3653060:3664276:-1 10/11 None
SNAP00000037473 ENSEMBL cdna:SNAP chromosome:CEL140:III:3657790:3664276:-1 11/11 None
C46F11.4.2 ENSEMBL cdna:known chromosome:CEL140:III:3657643:3664472:-1 gene:C46F11.4 11/11 None
C46F11.4.1 ENSEMBL cdna:known chromosome:CEL140:III:3657698:3664472:-1 gene:C46F11.4 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
chrIII:3657789-3664276(-) 99.51 100.0
Public Domain and Genome References
Gene Title ATP-dependent RNA helicase
Ensembl C46F11.4
Entrez Gene 175469 Entrez gene
SwissProt Q93382 EMBL-EBI
WormBase CE17559 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19671_AT DEAD/DEAH box helicase, putative at
ATH1-121501:260532_AT DEAD/DEAH box helicase, putative at
CANINE:1603923_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
CANINE:1602274_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
CANINE:1596822_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
CANINE_2:CFA.534.1.A1_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
CANINE_2:CFAAFFX.19876.1.S1_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
CANINE_2:CFAAFFX.19889.1.S1_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 cfa
DROSOPHILA_2:1637497_AT dm
DROSGENOME1:154617_AT dm
CHICKEN:GGA.5156.1.S1_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 gga
CHICKEN:GGA.5156.2.S1_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 gga
HG-U133A_2:201788_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U133A:201788_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U133_PLUS_2:201788_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-FOCUS:201788_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HU35KSUBA:RC_AA423808_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
U133_X3P:G11321631_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
U133_X3P:HS2.397166.1.S1_3P_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U133_PLUS_2:1559954_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U95AV2:38762_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
U133_X3P:HS2.397166.1.S1_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U133_PLUS_2:1559953_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
HG-U95E:68549_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 hs
MG-U74BV2:113119_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 mm
MOE430A:1427022_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 mm
MOUSE430A_2:1427022_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 mm
MOUSE430_2:1427022_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 mm
MOUSE430_2:1443719_X_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (Ddx42), mRNA mm
MOE430B:1443719_X_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (Ddx42), mRNA mm
MU19KSUBB:TC30977_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (Ddx42), mRNA mm
MU19KSUBB:TC32028_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (Ddx42), mRNA mm
RG-U34A:RC_AI639170_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) rn
RG-U34B:RC_AA964322_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) rn
RAE230A:1379896_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) rn
RAT230_2:1379896_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) rn
RAE230A:1376596_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) rn
RAT230_2:1376596_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 (predicted) 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 CAB03765 Hypothetical protein C46F11.4 [Caenorhabditis elegans] ref|NP_497743.1| C46F11.4 [Caenorhabditis elegans] 0.0
blast CAE64944 Hypothetical protein CBG09775 [Caenorhabditis briggsae] 0.0
blast XP_624210 PREDICTED: similar to GA19578-PA [Apis mellifera] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 7.4E-33
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.1E-84
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 7.4E-33
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.1E-84
Sequence
Target Sequence 
>C. ELEGANS:191351_S_AT
ggaacagcatacactcttgttactgaaaaagacattgaaatggtcggacatttggtcaaa
aatctggaaagtgtatcacaagaagtaccaaaacctttaatggatcttgcaatgaagagt
tcatggtttagaggacaaagagctgggaatggaggaccaagtactggaacacagacacgt
ggaagaatgggtcttggatatacaccaaaagttagacaagttggaggaggtgccactgga
gcacaatttgatccattaaaagagcaaaaaagttgtagaggtggagggaatcagacagtt
gatggaatgatcagaaatgcacaaagctttgccacgtcatcctcttcctcctcctcttca
agcagtggcccagcttccggagccaatagagcccaaatgctcaaaagtgcatttcagaaa
tcattccaaacaacatttcaacgacctacaaatgaatcttcaaatcttccacagcaagta
gcatcagatccaagaccagaatggaaaaagaaagtggatgaattgaatgcaaagattgca
cagcaacaggcttcttcagcttct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACAGCATACACTCTTGTTACTG 661 527 1834 Antisense
AAAACCTTTAATGGATCTTGCAATG 52 131 1923 Antisense
GAGGACCAAGTACTGGAACACAGAC 118 405 1985 Antisense
GAATGGGTCTTGGATATACACCAAA 265 333 2018 Antisense
AATGCACAAAGCTTTGCCACGTCAT 511 165 2149 Antisense
TCCGGAGCCAATAGAGCCCAAATGC 352 593 2209 Antisense
TCCAAACAACATTTCAACGACCTAC 515 585 2258 Antisense
AACGACCTACAAATGAATCTTCAAA 300 145 2273 Antisense
AAATCTTCCACAGCAAGTAGCATCA 596 117 2295 Antisense
GTAGCATCAGATCCAAGACCAGAAT 377 457 2311 Antisense
ACAGCAACAGGCTTCTTCAGCTTCT 41 109 2373 Antisense
Sequence Source Affymetrix Proprietary Database