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[188776_s_at] DNA helicase

Description E03A3.2 /REP_DB=WormBase Gene ID /WP=CE00941 /TR=Q19046 /GB=CAA86232.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=DNA helicase
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 65      6grp_highest_nonorm > 73      6grp_total > 56      4grp_total > 15      6grp_cgc > 36      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 592
1 2 3 4 range
A 623.5
(3)
P 		206.5
(-3)
A 		335.2
(-1.1)
M 		495.4
(1.2)
P 		417
B 536.7
(3)
P 		236
(-3)
A 		297.9
(-1.8)
A 		471.5
(1.7)
P 		301
C 654.7
(1.2)
P 		365.9
(-2.4)
A 		321.6
(-3)
P 		798.9
(3)
P 		477
avr 605
(3) 		269.5
(-3) 		318.2
(-2.1) 		588.6
(2.7) 		336

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 457
1 2 3 4 5 6 range
A 575.1
(-0.9)
P 		609.1
(0.3)
P 		682
(3)
P 		589.3
(-0.4)
P 		517.8
(-3)
P 		650.9
(1.9)
P 		164
B 754.2
(1)
P 		523.8
(-2)
P 		497.8
(-2.3)
P 		639.8
(-0.5)
P 		447.5
(-3)
P 		904.9
(3)
P 		457
C 488
(-2.1)
P 		552.1
(-0.2)
P 		659.1
(3)
P 		660.6
(3)
P 		456.8
(-3)
P 		579.8
(0.6)
P 		204
avr 605.8
(0.3) 		561.7
(-0.8) 		613
(0.5) 		629.9
(0.9) 		474
(-3) 		711.9
(3) 		238
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 227
(3)
P 		44.8
(-3)
A 		87.6
(-1.6)
M 		72.5
(-2.1)
P 		182
B 171.2
(3)
P 		58.3
(-3)
A 		69
(-2.4)
A 		100.5
(-0.8)
P 		113
C 216.7
(3)
P 		105.2
(-3)
A 		112.1
(-2.6)
P 		134.7
(-1.4)
P 		112
avr 205
(3) 		69.4
(-3) 		89.6
(-2.1) 		102.6
(-1.5) 		136

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 231
1 2 3 4 5 6 range
A 106
(-3)
P 		216.6
(3)
P 		148.5
(-0.7)
P 		149.5
(-0.6)
P 		156.2
(-0.3)
P 		158.5
(-0.2)
P 		111
B 262.4
(0.9)
P 		174.4
(-1.5)
P 		120.9
(-3)
P 		169.5
(-1.7)
P 		181.8
(-1.3)
P 		337.4
(3)
P 		217
C 180.9
(1.7)
P 		168.5
(0.5)
P 		167.7
(0.4)
P 		132.9
(-3)
P 		147.8
(-1.5)
P 		194.1
(3)
P 		61
avr 183.1
(-0.3) 		186.5
(-0.1) 		145.7
(-3) 		150.6
(-2.7) 		161.9
(-1.8) 		230
(3) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188776_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7585
Sequence Type Exemplar sequence
Representative Public ID E03A3.2 NCBI
Target Description E03A3.2 /REP_DB=WormBase Gene ID /WP=CE00941 /TR=Q19046 /GB=CAA86232.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=DNA 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_065409(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065409 NCBI Caenorhabditis elegans ReCQ DNA helicase family member (rcq-5) (rcq-5) mRNA, complete cds. 11/11 None
SNAP00000016639 ENSEMBL cdna:SNAP chromosome:CEL140:III:4052905:4057922:-1 11/11 None
GENEFINDER00000016645 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4052905:4055748:-1 11/11 None
E03A3.2 ENSEMBL cdna:known chromosome:CEL140:III:4052784:4057946:-1 gene:E03A3.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171103 7/11 Cross Hyb Matching Probes None
SNAP00000027340 6/11 Cross Hyb Matching Probes None
GENEFINDER00000027344 6/11 Cross Hyb Matching Probes None
SNAP00000016638 1/11 Cross Hyb Matching Probes None
GENEFINDER00000016649 1/11 Cross Hyb Matching Probes None
T02C12.4 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4052904-4057946(-) 100.0 100.0
Public Domain and Genome References
Gene Title DNA helicase
Gene Symbol rcq-5
Ensembl E03A3.2
Entrez Gene 175522 Entrez gene
SwissProt Q19046 EMBL-EBI
WormBase CE00941 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1595654_AT similar to ATP-dependent DNA helicase Q5 (RecQ protein-like 5) (RecQ5) cfa
CANINE:1587213_AT similar to ATP-dependent DNA helicase Q5 (RecQ protein-like 5) (RecQ5) cfa
CANINE_2:CFA.19177.2.A1_AT similar to ATP-dependent DNA helicase Q5 (RecQ protein-like 5) (RecQ5) cfa
CANINE_2:CFA.6463.1.A1_AT similar to ATP-dependent DNA helicase Q5 (RecQ protein-like 5) (RecQ5) cfa
CANINE_2:CFAAFFX.8248.1.S1_AT similar to ATP-dependent DNA helicase Q5 (RecQ protein-like 5) (RecQ5) cfa
DROSOPHILA_2:1628264_A_AT homolog of RecQ dm
DROSGENOME1:151786_AT homolog of RecQ dm
CHICKEN:GGA.114.1.S1_AT RecQ protein-like 5 gga
HG-U133_PLUS_2:221686_S_AT RecQ protein-like 5 hs
HG-U133A_2:221686_S_AT RecQ protein-like 5 hs
HG-U133A:221686_S_AT RecQ protein-like 5 hs
HG-U133_PLUS_2:211468_S_AT RecQ protein-like 5 hs
HG-U133A:211468_S_AT RecQ protein-like 5 hs
HG-U133A_2:211468_S_AT RecQ protein-like 5 hs
HG-U133_PLUS_2:210309_AT RecQ protein-like 5 hs
HG-U133A:210309_AT RecQ protein-like 5 hs
HG-U133A_2:210309_AT RecQ protein-like 5 hs
HU35KSUBA:RC_AA047034_AT RecQ protein-like 5 hs
HU35KSUBC:RC_N53539_AT RecQ protein-like 5 hs
HU35KSUBD:RC_H41073_S_AT RecQ protein-like 5 hs
U133_X3P:G7959114_3P_A_AT RecQ protein-like 5 hs
U133_X3P:G7959110_3P_X_AT RecQ protein-like 5 hs
U133_X3P:G7959110_3P_AT RecQ protein-like 5 hs
U133_X3P:G12053242_3P_A_AT RecQ protein-like 5 hs
U133_X3P:HS2.438441.1.S1_3P_AT RecQ protein-like 5 hs
U133_X3P:4822898_3P_X_AT RecQ protein-like 5 hs
U133_X3P:34063_3P_AT RecQ protein-like 5 hs
HG-U133_PLUS_2:1561720_AT RecQ protein-like 5 hs
HG-U133A_2:34063_AT RecQ protein-like 5 hs
HG-FOCUS:34063_AT RecQ protein-like 5 hs
HG-U133_PLUS_2:34063_AT RecQ protein-like 5 hs
HG-U133A:34063_AT RecQ protein-like 5 hs
HG-U95AV2:34063_AT RecQ protein-like 5 hs
HG-U95B:44623_AT RecQ protein-like 5 hs
HG-U95C:62914_AT RecQ protein-like 5 hs
HG-U95C:62915_G_AT RecQ protein-like 5 hs
HG-U95E:79796_AT RecQ protein-like 5 hs
HU35KSUBD:RC_T49816_AT RecQ protein-like 5 hs
U133_X3P:HS.134478.0.A1_3P_AT RecQ protein-like 5 hs
HG-U133_PLUS_2:229740_AT RecQ protein-like 5 hs
HG-U133B:229740_AT RecQ protein-like 5 hs
HG-U95B:50891_AT RecQ protein-like 5 hs
HG-U95C:61929_AT RecQ protein-like 5 hs
MU11KSUBA:AA624143_AT RecQ protein-like 5 mm
MG-U74AV2:97108_AT RecQ protein-like 5 mm
MOE430A:1421235_S_AT RecQ protein-like 5 mm
MOUSE430A_2:1421235_S_AT RecQ protein-like 5 mm
MOUSE430_2:1421235_S_AT RecQ protein-like 5 mm
MU19KSUBC:TC35542_AT Myosin XVB, mRNA (cDNA clone IMAGE:4983596) mm
RAE230B:1393087_AT RecQ protein-like 5 (predicted) rn
RAT230_2:1393087_AT RecQ protein-like 5 (predicted) rn
RAE230B:1381377_AT RecQ protein-like 5 (predicted) rn
RAT230_2:1381377_AT RecQ protein-like 5 (predicted) rn
RG-U34B:RC_AA997538_AT RecQ protein-like 5 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6259 DNA metabolism inferred from electronic annotation QuickGO AmiGO
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 CAA86232 Hypothetical protein E03A3.2 [Caenorhabditis elegans] ref|NP_497810.1| ReCQ DNA helicase family member (rcq-5) [Caenorhabditis elegans] 0.0
blast CAE72884 Hypothetical protein CBG20197 [Caenorhabditis briggsae] 0.0
blast CAE72884 Hypothetical protein CBG20197 [Caenorhabditis briggsae] 1.0E-179
blast NP_569721 RecQ protein-like 5 [Mus musculus] dbj|BAB79232.1| RecQ helicase protein-like 5 beta [Mus musculus] 1.0E-108
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 7.5E-27
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.2E-38
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 7.5E-27
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.2E-38
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 7.5E-27
Sequence
Target Sequence 
>C. ELEGANS:188776_S_AT
gcgaagcatcaacaggccgtagtatgttcagaaagtctgcttcatctggagaaagtggat
ttgatagtgtatatggaggaggaaaacgtggtggagaaacagaagatgaactattatcag
ctgcaagtacatcgaaagatgcaatggatcgaatggaacaagaagaagcaaaacgagttc
gatcagttatttcccaagaatttgcgaaacgaagacaggcggcacctccaccaagagcca
ctgcgagacgggtagaaccggcgactgatgtgaatgtgattaaaccggaacaaaatgtta
ttaagaatgtgactcttgagactcgagaaaactgggttcgatttcttcatcgtgctcttg
attcaaattggattgtttcgggaccaccagctggtgttacaacgaaacaatgtgccgaac
aactggaatatggactatattcaatttcaaaaaatgagacaacttataagaataagtgtg
gacacaagctggctgaaatcaagaaattgacactgaagaatgctcctttcgcctacacaa
atacaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAAGCATCAACAGGCCGTAGTAT 369 287 1853 Antisense
GAGTTCGATCAGTTATTTCCCAAGA 551 397 2027 Antisense
CGAAACGAAGACAGGCGGCACCTCC 640 249 2057 Antisense
GAGCCACTGCGAGACGGGTAGAACC 323 383 2087 Antisense
GGGTAGAACCGGCGACTGATGTGAA 468 495 2102 Antisense
AACTGGGTTCGATTTCTTCATCGTG 591 141 2182 Antisense
TTCTTCATCGTGCTCTTGATTCAAA 199 691 2195 Antisense
ATTGGATTGTTTCGGGACCACCAGC 676 1 2219 Antisense
GGGACCACCAGCTGGTGTTACAACG 338 493 2232 Antisense
GACACTGAAGAATGCTCCTTTCGCC 499 367 2361 Antisense
CTCCTTTCGCCTACACAAATACAGA 273 235 2375 Antisense
Sequence Source Affymetrix Proprietary Database