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[188578_at] helicase

Description H27M09.1 /REP_DB=WormBase Gene ID /WP=CE23832 /TR=Q9N5K1 /GB=AAF39907.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=helicase
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 68      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 91      6grp_total > 78      4grp_total > 07      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 268.9
(3)
P 		129.2
(-3)
P 		176.7
(-1)
P 		182.8
(-0.7)
P 		140
B 193.1
(0.3)
P 		149.4
(-3)
P 		171.1
(-1.4)
P 		228.6
(3)
P 		79
C 244.8
(3)
P 		69.4
(-3)
P 		225
(2.3)
P 		234.2
(2.6)
P 		175
avr 235.6
(3) 		116
(-3) 		190.9
(0.8) 		215.2
(2) 		120

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 164
(-3)
P 		270.1
(3)
P 		257.6
(2.3)
P 		216.1
(-0.1)
P 		179.3
(-2.1)
P 		266.1
(2.8)
P 		106
B 246.7
(3)
P 		221.2
(0.1)
P 		193.6
(-3)
P 		196.5
(-2.7)
P 		242.5
(2.5)
P 		238.3
(2.1)
P 		53
C 226.2
(0.2)
P 		208.9
(-0.4)
P 		175.6
(-1.6)
P 		135
(-3)
P 		231.9
(0.4)
P 		308.3
(3)
P 		173
avr 212.3
(-1) 		233.4
(0.5) 		208.9
(-1.2) 		182.5
(-3) 		217.9
(-0.6) 		270.9
(3) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 97.9
(3)
P 		28.1
(-2.9)
P 		46.2
(-1.4)
P 		26.8
(-3)
P 		71
B 61.6
(3)
P 		36.9
(-3)
P 		39.7
(-2.3)
P 		48.7
(-0.1)
P 		25
C 81
(3)
P 		19.9
(-3)
P 		78.4
(2.7)
P 		39.5
(-1.1)
P 		61
avr 80.2
(3) 		28.3
(-3) 		54.8
(0.1) 		38.3
(-1.8) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 30.2
(-3)
P 		96
(3)
P 		56.1
(-0.6)
P 		54.8
(-0.8)
P 		54.1
(-0.8)
P 		64.8
(0.2)
P 		66
B 85.8
(1.5)
P 		73.6
(0.1)
P 		47
(-3)
P 		52.1
(-2.4)
P 		98.5
(3)
P 		88.9
(1.9)
P 		52
C 83.8
(1.5)
P 		63.7
(-0.1)
P 		44.7
(-1.6)
P 		27.1
(-3)
P 		75
(0.8)
P 		103.2
(3)
P 		76
avr 66.6
(0.2) 		77.8
(1.9) 		49.3
(-2.3) 		44.7
(-3) 		75.9
(1.6) 		85.6
(3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188578_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1024
Sequence Type Exemplar sequence
Representative Public ID H27M09.1 NCBI
Target Description H27M09.1 /REP_DB=WormBase Gene ID /WP=CE23832 /TR=Q9N5K1 /GB=AAF39907.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=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_059561(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059561 NCBI Caenorhabditis elegans H27M09.1 (helicase) mRNA, complete cds. 11/11 A 
SNAP00000019138 ENSEMBL cdna:SNAP chromosome:CEL140:I:6859513:6862196:1 11/11 None
GENEFINDER00000019143 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6859513:6862196:1 11/11 None
H27M09.1 ENSEMBL cdna:known chromosome:CEL140:I:6859504:6862251:1 gene:H27M09.1 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
chrI:6859443-6862127(+) 96.35 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl H27M09.1
Entrez Gene 172413 Entrez gene
SwissProt Q9N5K1 EMBL-EBI
WormBase CE23832 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248442_AT DEAD-box protein abstrakt, putative at
CANINE:1606067_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.17269.1.S1_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.17269.1.S1_S_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.3375.1.S1_S_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
DROSOPHILA_2:1623353_AT abstrakt dm
DROSGENOME1:154450_AT abstrakt dm
CHICKEN:GGA.17098.1.S1_S_AT similar to DEAD-box protein abstrakt homolog (DEAD-box protein 41) gga
CHICKEN:GGAAFFX.25721.1.S1_AT similar to DEAD-box protein abstrakt homolog (DEAD-box protein 41) gga
HG-U133_PLUS_2:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U133A:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-FOCUS:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U133A_2:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HU35KSUBA:RC_AA099397_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:G7705259_3P_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:G7705259_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:217840_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65559_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65567_I_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65568_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
MU11KSUBA:AA541973_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MG-U74AV2:160663_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOE430A:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOUSE430A_2:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOUSE430_2:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MU19KSUBB:TC27591_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (Ddx41), mRNA mm
RG-U34C:RC_AI232878_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) rn
RAE230A:1372377_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) rn
RAT230_2:1372377_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (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 AAF39907 Hypothetical protein H27M09.1 [Caenorhabditis elegans] ref|NP_491962.1| H27M09.1 [Caenorhabditis elegans] 0.0
blast CAE67294 Hypothetical protein CBG12746 [Caenorhabditis briggsae] 0.0
blast XP_392069 PREDICTED: similar to ENSANGP00000017814 [Apis mellifera] 1.0E-177
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 4.1E-32
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.8E-69
Sequence
Target Sequence 
>C. ELEGANS:188578_AT
tggttcgtgtacttgaatgccttcaaaagacttctcccaaagttttgatttttgccgaaa
agaaagttgacgttgacaatatctacgagtacttgcttgtaaaaggagttgaagttgctt
caattcacggaggaaaagatcaaagtgaccgtcatgctggaattgaggcattccgaaaaa
atgagaaagatgtacttgtggcaacagatgttgcatcaaaaggactcgatttccaaggaa
ttgaacatgttatcaattttgacatgcctgaagatattgagaactatgttcatcgaattg
gtcgtaccggacgttccggacggaaaggtctcgcaacgacatttatcaacaaaaaatcgg
agatgtcagtgctttccgacttgaaacaattactcgcagaagcagggcaggaacttccag
aatttctcaaaatgttggctggtgacgaggagggaactgctccagctggcacaaatgcgg
aaaagggatgcgcatactgctccggtctgggtcatcgcatcacagattgtccaaaactcg
ctggaatcggaaacaaaacgacgcaagcattggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGTTCGTGTACTTGAATGCCTTCA 87 551 1301 Antisense
GAATGCCTTCAAAAGACTTCTCCCA 194 331 1315 Antisense
TCTCCCAAAGTTTTGATTTTTGCCG 256 593 1333 Antisense
GACAATATCTACGAGTACTTGCTTG 659 363 1375 Antisense
GAAGTTGCTTCAATTCACGGAGGAA 374 337 1411 Antisense
GTGACCGTCATGCTGGAATTGAGGC 651 481 1445 Antisense
GATGTACTTGTGGCAACAGATGTTG 95 409 1489 Antisense
GCATCAAAAGGACTCGATTTCCAAG 708 307 1513 Antisense
GTTCATCGAATTGGTCGTACCGGAC 376 437 1588 Antisense
TTCCGGACGGAAAGGTCTCGCAACG 395 699 1614 Antisense
GAAACAAAACGACGCAAGCATTGGC 311 353 1850 Antisense
Sequence Source Affymetrix Proprietary Database