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[171900_s_at] helicase

Description AU116612_rc /REP_DB=TREMBL Accession /GB=AU116612 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk746g3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 56      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 77      6grp_total > 48      4grp_total > 03      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6679
1 2 3 4 range
A 1435.5
(-2.4)
P 		802.9
(-3)
P 		785.5
(-3)
P 		7370.9
(3)
P 		6585
B 1631
(-2.1)
P 		692.3
(-3)
P 		853.9
(-2.8)
P 		7078.1
(3)
P 		6386
C 1606.2
(-2.2)
P 		709.6
(-3)
P 		971.8
(-2.8)
P 		7280.3
(3)
P 		6571
avr 1557.6
(-2.2) 		734.9
(-3) 		870.4
(-2.9) 		7243.1
(3) 		6508

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 987
1 2 3 4 5 6 range
A 1472
(1.9)
P 		1590.3
(3)
P 		942.7
(-3)
P 		1376.1
(1)
P 		1171.5
(-0.9)
P 		1521.9
(2.4)
P 		648
B 1311.3
(-1.7)
P 		1562.7
(1.7)
P 		1217.2
(-3)
P 		1301.6
(-1.8)
P 		1485.1
(0.7)
P 		1656.7
(3)
P 		440
C 1642.4
(0.5)
P 		1373.2
(-1.8)
P 		1369.5
(-1.8)
P 		1605.9
(0.2)
P 		1235.5
(-3)
P 		1929.2
(3)
P 		694
avr 1475.2
(0.4) 		1508.7
(0.8) 		1176.5
(-3) 		1427.9
(-0.1) 		1297.4
(-1.6) 		1702.6
(3) 		526
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1337
1 2 3 4 range
A 522.7
(-0.7)
P 		174.3
(-3)
P 		205.3
(-2.8)
P 		1079
(3)
P 		905
B 520.1
(-1.4)
P 		171
(-3)
P 		197.9
(-2.9)
P 		1508.4
(3)
P 		1337
C 531.7
(-1.1)
P 		204
(-3)
P 		338.7
(-2.2)
P 		1227.6
(3)
P 		1024
avr 524.8
(-1.1) 		183.1
(-3) 		247.3
(-2.6) 		1271.7
(3) 		1089

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 441
1 2 3 4 5 6 range
A 271.4
(-1.9)
P 		565.6
(3)
P 		205.3
(-3)
P 		349
(-0.6)
P 		353.5
(-0.5)
P 		370.5
(-0.2)
P 		360
B 456.3
(-0)
P 		520.2
(1.2)
P 		295.6
(-3)
P 		344.8
(-2.1)
P 		603.4
(2.7)
P 		617.8
(3)
P 		322
C 608.8
(2.3)
P 		419
(-1.2)
P 		348.6
(-2.5)
P 		323
(-3)
P 		399.8
(-1.6)
P 		645.8
(3)
P 		323
avr 445.5
(0.7) 		501.6
(2) 		283.2
(-3) 		338.9
(-1.7) 		452.2
(0.9) 		544.7
(3) 		262
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171900_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27638
Sequence Type Exemplar sequence
Representative Public ID AU116612 NCBI
Target Description AU116612_rc /REP_DB=TREMBL Accession /GB=AU116612 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk746g3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_060378(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060378 NCBI Caenorhabditis elegans B0511.6 (helicase) mRNA, complete cds. 11/11 A 
SNAP00000031153 ENSEMBL cdna:SNAP chromosome:CEL140:I:10633516:10636344:1 11/11 None
GENEFINDER00000031178 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10633516:10636344:1 11/11 None
B0511.6.4 ENSEMBL cdna:known chromosome:CEL140:I:10633202:10636459:1 gene:B0511.6 11/11 None
B0511.6.3 ENSEMBL cdna:known chromosome:CEL140:I:10633203:10636508:1 gene:B0511.6 11/11 None
B0511.6.2 ENSEMBL cdna:known chromosome:CEL140:I:10633502:10636508:1 gene:B0511.6 11/11 A 
B0511.6.5 ENSEMBL cdna:known chromosome:CEL140:I:10633502:10636406:1 gene:B0511.6 11/11 None
B0511.6.1 ENSEMBL cdna:known chromosome:CEL140:I:10633509:10636508:1 gene:B0511.6 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
C43H8.1.2 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:10635888-10636368(+) 65.81 65.81
Public Domain and Genome References
Gene Title helicase
Ensembl B0511.6
Entrez Gene 172954 Entrez gene
SwissProt O61815 EMBL-EBI
WormBase CE26853 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256797_AT DEAD/DEAH box helicase, putative at
CANINE_2:CFAAFFX.8348.1.S1_AT similar to ATP-dependent RNA helicase DDX18 (DEAD-box protein 18) (Myc-regulated DEAD-box protein) (MrDb) cfa
CANINE_2:CFAAFFX.8348.1.S1_S_AT similar to ATP-dependent RNA helicase DDX18 (DEAD-box protein 18) (Myc-regulated DEAD-box protein) (MrDb) cfa
DROSOPHILA_2:1625758_S_AT pitchoune dm
DROSGENOME1:155149_AT pitchoune dm
CHICKEN:GGA.9223.1.S1_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 gga
HG-U95AV2:398_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HC-G110:398_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133_PLUS_2:208897_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A:208897_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A_2:208897_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HU35KSUBD:RC_AA287907_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HU35KSUBD:RC_R08935_F_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HU35KSUBD:RC_AA452233_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HUGENEFL:X98743_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A:205763_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133_PLUS_2:205763_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A_2:205763_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
U133_X3P:G13787205_3P_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
U133_X3P:G13097182_3P_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
U133_X3P:HS.100555.1.S3_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
U133_X3P:HS.100555.1.S1_3P_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A_2:208895_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-FOCUS:208895_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133_PLUS_2:208895_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A:208895_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A_2:208896_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133_PLUS_2:208896_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
HG-U133A:208896_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 hs
MU11KSUBB:MSA.8738.0_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MU11KSUBB:MSA.32763.0_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MG-U74AV2:100037_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MG-U74AV2:160492_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOE430A:1416070_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOUSE430A_2:1416070_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOUSE430_2:1416070_A_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOE430A:1416071_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOUSE430A_2:1416071_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MOUSE430_2:1416071_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 mm
MG-U74CV2:132115_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:40620 IMAGE:2582151) mm
MOUSE430_2:1456000_AT 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810011G08 product:weakly similar to DEAD/H (ASP-GLU-ALA-ASP/HIS) BOX POLYPEPTIDE 18 (MYC-REGULATED) [Homo sapiens], full insert sequence mm
MOUSE430A_2:1456000_AT 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810011G08 product:weakly similar to DEAD/H (ASP-GLU-ALA-ASP/HIS) BOX POLYPEPTIDE 18 (MYC-REGULATED) [Homo sapiens], full insert sequence mm
MOE430A:1456000_AT 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810011G08 product:weakly similar to DEAD/H (ASP-GLU-ALA-ASP/HIS) BOX POLYPEPTIDE 18 (MYC-REGULATED) [Homo sapiens], full insert sequence mm
MU19KSUBA:TC18610_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:40620 IMAGE:2582151) mm
MU19KSUBA:TC18610_G_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:40620 IMAGE:2582151) mm
MU19KSUBC:TC40834_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 18, mRNA (cDNA clone MGC:40620 IMAGE:2582151) mm
RAE230B:1397508_AT similar to RIKEN cDNA 2310005B10 rn
RAT230_2:1397508_AT similar to RIKEN cDNA 2310005B10 rn
RAE230B:1377945_AT similar to RIKEN cDNA 2310005B10 rn
RAT230_2:1377945_AT similar to RIKEN cDNA 2310005B10 rn
YEAST_2:1774223_AT ATP-dependent RNA helicase; localizes to both the nuclear periphery and nucleolus; highly enriched in nuclear pore complex fractions; constituent of 66S pre-ribosomal particles 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 AAC17654 Hypothetical protein B0511.6 [Caenorhabditis elegans] ref|NP_492779.1| B0511.6 [Caenorhabditis elegans] 0.0
blast CAE67057 Hypothetical protein CBG12465 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.0E-27
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 3.0E-79
Sequence
Target Sequence 
>C. ELEGANS:171900_S_AT
caccgtttgttgatcttccgatcagcaataagccaaaggttgagatccgttcaaaactat
ccggagctggctaccgcaagaagaagcagtcattcacattcaaggcgaagaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCGTTTGTTGATCTTCCGATCAG 29 201 110 Antisense
GATCTTCCGATCAGCAATAAGCCAA 59 421 121 Antisense
TCCGATCAGCAATAAGCCAAAGGTT 558 591 126 Antisense
GCCAAAGGTTGAGATCCGTTCAAAA 320 269 141 Antisense
GGTTGAGATCCGTTCAAAACTATCC 374 503 147 Antisense
AAAACTATCCGGAGCTGGCTACCGC 95 129 162 Antisense
TATCCGGAGCTGGCTACCGCAAGAA 508 657 167 Antisense
GGAGCTGGCTACCGCAAGAAGAAGC 197 519 172 Antisense
GGCTACCGCAAGAAGAAGCAGTCAT 448 537 178 Antisense
AAGCAGTCATTCACATTCAAGGCGA 40 151 193 Antisense
GTCATTCACATTCAAGGCGAAGAAG 378 453 198 Antisense
Sequence Source Affymetrix Proprietary Database