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[191461_at] ATP dependent RNA helicase

Description R05D11.4 /REP_DB=WormBase Gene ID /WP=CE06239 /TR=Q21736 /GB=CAA99891.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ATP dependent RNA helicase
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 42      4grp_high_8_8 > 48      6grp_highest_nonorm > 83      6grp_total > 57      4grp_total > 55      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 276
1 2 3 4 range
A 683.6
(3)
P 		557
(-1.2)
P 		536.6
(-1.9)
P 		504.7
(-3)
P 		179
B 659.3
(3)
P 		491.5
(-3)
P 		575.7
(0)
P 		516.2
(-2.1)
P 		168
C 750.7
(3)
P 		497.4
(-2.5)
P 		613
(0)
P 		474.4
(-3)
P 		276
avr 697.9
(3) 		515.3
(-2.5) 		575.1
(-0.7) 		498.4
(-3) 		200

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 419
1 2 3 4 5 6 range
A 385.2
(-0.6)
P 		438
(0.3)
P 		461.4
(0.7)
P 		414.4
(-0.1)
P 		242.9
(-3)
P 		598.5
(3)
P 		356
B 542.3
(0.2)
P 		493.7
(-0.9)
P 		476.6
(-1.3)
P 		431.1
(-2.3)
P 		400.7
(-3)
P 		662.3
(3)
P 		262
C 566.3
(1.2)
P 		532.1
(0.5)
P 		408.1
(-2)
P 		478.7
(-0.6)
P 		358
(-3)
P 		656
(3)
P 		298
avr 497.9
(0.2) 		487.9
(0) 		448.7
(-0.7) 		441.4
(-0.9) 		333.9
(-3) 		638.9
(3) 		305
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 175
1 2 3 4 range
A 248.9
(3)
P 		120.9
(-1.4)
P 		140.3
(-0.7)
P 		73.9
(-3)
P 		175
B 210.2
(3)
P 		121.4
(-2.3)
P 		133.4
(-1.6)
P 		110
(-3)
P 		100
C 248.5
(3)
P 		143
(-0.8)
P 		213.6
(1.8)
P 		80
(-3)
P 		169
avr 235.9
(3) 		128.4
(-1.4) 		162.4
(0) 		88
(-3) 		148

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 71
(-3)
P 		155.8
(3)
P 		100.5
(-0.9)
P 		105.1
(-0.6)
P 		73.3
(-2.8)
P 		145.7
(2.3)
P 		85
B 188.7
(0.4)
P 		164.3
(-0.7)
P 		115.7
(-2.9)
P 		114.2
(-3)
P 		162.8
(-0.8)
P 		247
(3)
P 		133
C 209.9
(2.5)
P 		162.4
(0.2)
P 		103.9
(-2.6)
P 		96.3
(-3)
P 		115.9
(-2)
P 		219.6
(3)
P 		123
avr 156.5
(0.1) 		160.8
(0.4) 		106.7
(-2.9) 		105.2
(-3) 		117.3
(-2.3) 		204.1
(3) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191461_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1664
Sequence Type Exemplar sequence
Representative Public ID R05D11.4 NCBI
Target Description R05D11.4 /REP_DB=WormBase Gene ID /WP=CE06239 /TR=Q21736 /GB=CAA99891.1 /SUBMIT=HINXTON /CHR=1 /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_059925(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059925 NCBI Caenorhabditis elegans R05D11.4 (R05D11.4) mRNA, complete cds. 11/11 None
GENEFINDER00000034031 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8604463:8608858:1 11/11 None
SNAP00000034021 ENSEMBL cdna:SNAP chromosome:CEL140:I:8606783:8608858:1 11/11 None
R05D11.4.2 ENSEMBL cdna:known chromosome:CEL140:I:8606781:8609226:1 gene:R05D11.4 11/11 None
R05D11.4.1 ENSEMBL cdna:known chromosome:CEL140:I:8606783:8609226:1 gene:R05D11.4 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
chrI:8606713-8608789(+) 100.0 100.0
Public Domain and Genome References
Gene Title ATP dependent RNA helicase
Ensembl R05D11.4
Entrez Gene 172651 Entrez gene
SwissProt Q21736 EMBL-EBI
WormBase CE06239 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258701_AT DEAD/DEAH box helicase, putative at
DROSOPHILA_2:1630347_AT dm
DROSGENOME1:142865_AT dm
CHICKEN:GGA.2924.2.S1_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 gga
CHICKEN:GGAAFFX.3447.1.S1_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 gga
CHICKEN:GGAAFFX.3447.1.S1_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 gga
HG-U133_PLUS_2:210320_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133A:210320_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133A_2:210320_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133A:212834_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133A_2:212834_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133_PLUS_2:212834_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U95B:46725_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HU35KSUBB:RC_N20812_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HU35KSUBD:RC_W73792_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HU35KSUBD:RC_AA456419_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:G4689113_3P_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:HS2.291895.1.S1_3P_X_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:HS2.291895.1.S1_3P_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:HS2.291895.1.S1_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:HS.99423.1.S2_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
U133_X3P:1570415_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U133_PLUS_2:1570415_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U95AV2:38358_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U95C:63733_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
HG-U95D:69812_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 hs
MU11KSUBB:MSA.42799.0_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MG-U74AV2:160627_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOE430A:1434608_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOUSE430A_2:1434608_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOUSE430_2:1434608_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOE430A:1434607_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOUSE430A_2:1434607_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MOUSE430_2:1434607_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 mm
MG-U74CV2:133841_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52, mRNA (cDNA clone MGC:28028 IMAGE:3662249) mm
MU19KSUBC:TC36688_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 52, mRNA (cDNA clone MGC:28028 IMAGE:3662249) mm
RG-U34B:RC_AI030825_AT ATP-dependent, RNA helicase rn
RAE230A:1368588_AT ATP-dependent, RNA helicase rn
RAT230_2:1368588_AT ATP-dependent, RNA helicase rn
YEAST_2:1771440_AT ATP-dependent RNA helicase of the DEAD box family; required for 18S rRNA synthesis Sc
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 CAA99891 Hypothetical protein R05D11.4 [Caenorhabditis elegans] ref|NP_492326.1| R05D11.4 [Caenorhabditis elegans] 0.0
blast CAE67097 Hypothetical protein CBG12508 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 8.3E-32
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 7.7E-60
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 8.3E-32
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.1E-8
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.7E-44
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 8.3E-32
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.1E-8
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.7E-44
Sequence
Target Sequence 
>C. ELEGANS:191461_AT
gatcgtgccgtgcaactggtgaaattactgtctgcaattgattcaaatctaaaagttgat
tcaatcaacagtggaaaaagtgataaggaaagggatgaaacgatggaaaggttccgtcga
ggagagatatgggttctcgtttgtactgaattacttggaagaggtcttgacttgtctgat
gttggattggttatcaattatgatttgccaacttcaattgttagctacattcatcgtgtt
ggaagaactggtcgtgctggaaagagtggtcatgctgtcacatacttcacagatgctgat
atgaagtatattaaatcaattgcaactgttatccgtcaatctggttttgatgtgccggag
tatttaatggaaatgaaaaaagtctcgagagatcgtaaaaaggatatgctcaaacatgct
ccaaagcgtcacaaaatcgccattgta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCGTGCCGTGCAACTGGTGAAAT 656 417 1162 Antisense
GATATGGGTTCTCGTTTGTACTGAA 55 425 1287 Antisense
GAGGTCTTGACTTGTCTGATGTTGG 710 401 1322 Antisense
GATTTGCCAACTTCAATTGTTAGCT 542 427 1363 Antisense
TGTTAGCTACATTCATCGTGTTGGA 470 561 1380 Antisense
GGAAGAACTGGTCGTGCTGGAAAGA 540 531 1402 Antisense
GTGGTCATGCTGTCACATACTTCAC 258 489 1427 Antisense
GCAACTGTTATCCGTCAATCTGGTT 12 321 1483 Antisense
CAATCTGGTTTTGATGTGCCGGAGT 632 179 1498 Antisense
GCTCAAACATGCTCCAAAGCGTCAC 231 301 1569 Antisense
AAAGCGTCACAAAATCGCCATTGTA 95 125 1584 Antisense
Sequence Source Affymetrix Proprietary Database