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[188253_s_at] helicase

Description F52B5.3 /REP_DB=WormBase Gene ID /WP=CE05718 /TR=Q20644 /GB=CAA99855.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=helicase
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_high_8_8 > 25      6grp_highest_nonorm > 82      6grp_total > 67      4grp_total > 39      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 124
1 2 3 4 range
A 278.7
(3)
P 		194.1
(-2.3)
M 		183
(-3)
A 		205.7
(-1.6)
P 		96
B 285.1
(3)
P 		199.2
(-1.2)
P 		161
(-3)
P 		187.8
(-1.7)
P 		124
C 271.4
(3)
P 		170.6
(-3)
P 		178.1
(-2.6)
P 		212.2
(-0.5)
P 		101
avr 278.4
(3) 		188
(-2.2) 		174
(-3) 		201.9
(-1.4) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 326.7
(-0.6)
P 		295.8
(-1.6)
P 		252.3
(-3)
P 		267
(-2.5)
P 		379.6
(1.1)
P 		437.4
(3)
P 		185
B 257.4
(-3)
P 		338.5
(1.7)
P 		334.1
(1.4)
P 		272
(-2.2)
P 		281.2
(-1.6)
P 		361
(3)
P 		104
C 286.4
(-2.4)
P 		324.8
(-0.7)
P 		279.1
(-2.8)
P 		390.3
(2.3)
P 		273.8
(-3)
P 		405
(3)
P 		131
avr 290.2
(-2.9) 		319.7
(-1.3) 		288.5
(-3) 		309.8
(-1.9) 		311.5
(-1.8) 		401.1
(3) 		113
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 101.5
(3)
P 		42.1
(-2)
M 		47.8
(-1.5)
A 		30.1
(-3)
P 		71
B 90.9
(3)
P 		49.2
(-1.7)
P 		37.3
(-3)
P 		40
(-2.7)
P 		54
C 89.8
(3)
P 		49.1
(-1.5)
P 		62.1
(-0.1)
P 		35.8
(-3)
P 		54
avr 94.1
(3) 		46.8
(-1.8) 		49.1
(-1.6) 		35.3
(-3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 81
1 2 3 4 5 6 range
A 60.2
(-2.5)
P 		105.2
(2.1)
P 		54.9
(-3)
P 		67.7
(-1.7)
P 		114.5
(3)
P 		106.5
(2.2)
P 		60
B 89.6
(-1.3)
P 		112.7
(0.9)
P 		81.1
(-2.1)
P 		72.1
(-3)
P 		114.2
(1)
P 		134.6
(3)
P 		63
C 106.2
(0.3)
P 		99.1
(-0.4)
P 		71
(-3)
P 		78.5
(-2.3)
P 		88.6
(-1.4)
P 		135.6
(3)
P 		65
avr 85.3
(-1.3) 		105.7
(0.9) 		69
(-3) 		72.8
(-2.6) 		105.8
(0.9) 		125.6
(3) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188253_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2212
Sequence Type Exemplar sequence
Representative Public ID F52B5.3 NCBI
Target Description F52B5.3 /REP_DB=WormBase Gene ID /WP=CE05718 /TR=Q20644 /GB=CAA99855.1 /SUBMIT=HINXTON /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_059859(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059859 NCBI Caenorhabditis elegans F52B5.3 (helicase) mRNA, complete cds. 11/11 None
SNAP00000039361 ENSEMBL cdna:SNAP chromosome:CEL140:I:8324374:8332107:-1 10/11 None
GENEFINDER00000039366 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8324374:8332107:-1 10/11 None
F52B5.3 ENSEMBL cdna:known chromosome:CEL140:I:8326482:8332107:-1 gene:F52B5.3 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:8326628-8332038(-) 100.0 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl F52B5.3
Entrez Gene 172615 Entrez gene
SwissProt Q20644 EMBL-EBI
WormBase CE05718 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262636_AT DEIH-box RNA/DNA helicase at
ATGENOME1:18674_AT DEIH-box RNA/DNA helicase at
CANINE:1604310_AT similar to YTH domain containing 2 cfa
CANINE_2:CFAAFFX.1302.1.S1_S_AT similar to YTH domain containing 2 cfa
CHICKEN:GGA.17816.1.S1_AT similar to FLJ21940 protein gga
CHICKEN:GGAAFFX.114.1.S1_S_AT similar to FLJ21940 protein gga
CHICKEN:GGAAFFX.121.1.S1_AT similar to FLJ21940 protein gga
HG-U133_PLUS_2:205836_S_AT YTH domain containing 2 hs
HG-U133A:205836_S_AT YTH domain containing 2 hs
HG-U133A_2:205836_S_AT YTH domain containing 2 hs
HG-U133_PLUS_2:205835_S_AT YTH domain containing 2 hs
HG-U133A_2:205835_S_AT YTH domain containing 2 hs
HG-U133A:205835_S_AT YTH domain containing 2 hs
HU35KSUBD:RC_AA431784_AT YTH domain containing 2 hs
U133_X3P:G12383069_3P_A_AT YTH domain containing 2 hs
U133_X3P:HS2.382774.1.S1_3P_S_AT YTH domain containing 2 hs
U133_X3P:HS.104916.1.S1_3P_AT YTH domain containing 2 hs
U133_X3P:HS.104916.0.S1_3P_A_AT YTH domain containing 2 hs
HG-U133_PLUS_2:1568680_S_AT YTH domain containing 2 hs
HG-U133A_2:213077_AT YTH domain containing 2 hs
HG-U133_PLUS_2:213077_AT YTH domain containing 2 hs
HG-U133A:213077_AT YTH domain containing 2 hs
HG-U95AV2:41398_AT YTH domain containing 2 hs
HG-U95D:78857_AT YTH domain containing 2 hs
HG-U133_PLUS_2:241588_AT YTH domain containing 2 hs
HG-U133B:241588_AT YTH domain containing 2 hs
HG-U95D:73867_AT YTH domain containing 2 hs
U133_X3P:HS.231942.0.A1_3P_AT YTH domain containing 2 hs
MG-U74BV2:113304_AT YTH domain containing 2 mm
MOE430B:1437357_AT YTH domain containing 2 mm
MOUSE430_2:1437357_AT YTH domain containing 2 mm
MU19KSUBC:TC38036_AT PREDICTED: similar to YTH domain containing 2 [Mus musculus], mRNA sequence mm
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 CAA99855 Hypothetical protein F52B5.3 [Caenorhabditis elegans] ref|NP_492260.1| F52B5.3 [Caenorhabditis elegans] 0.0
blast CAE60471 Hypothetical protein CBG04082 [Caenorhabditis briggsae] 0.0
blast CAA99854 Hypothetical protein F52B5.2 [Caenorhabditis elegans] ref|NP_492259.1| F52B5.2 [Caenorhabditis elegans] 1.0E-163
blast CAA99854 Hypothetical protein F52B5.2 [Caenorhabditis elegans] ref|NP_492259.1| F52B5.2 [Caenorhabditis elegans] 1.0E-159
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 9.0E-20
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 1.0E-23
hanks 3.1.3 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; Cdk3 8.0E-19
hanks 3.1.3 CMCG Group; CMGC I Cyclin-dependent (CDKs) and close relatives; Cdk3 1.0E-22
Protein Domains
Database ID Description E-Value
Pfam IPR007502 EMBL-EBI Helicase-associated region 6.1E-21
Pfam IPR001374 EMBL-EBI Single-stranded nucleic acid binding R3H 1.1E-16
Pfam IPR000719 EMBL-EBI Protein kinase 3.5E-39
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 8.3E-15
Pfam IPR000719 EMBL-EBI Protein kinase 3.3E-9
Pfam IPR000719 EMBL-EBI Protein kinase 1.1E-21
Sequence
Target Sequence 
>C. ELEGANS:188253_S_AT
acaactttgcacctgtggtcatgccccatttaaatctgaaattctactcaaactccgaga
atccgtatgcgagcattgtgaggaatgataataatcgtagaaatcactcggatcccaatc
aaaagtcaacagaacgagaatcaagaaaacctaaagaggctgtctcacatggaaattcaa
gaaaacagtctaaaccaccaaaaaatcatcaaacgaagacaacatccaactttccgtctc
acaattttccacctccggatttaatgcgaaatagtcattacaatcaaaatatgagcacat
cgcatcaatcgtcaagtagtaacaatcatcattatagccataattatagttatccacatt
ataacatccaactgccacagaatcagtaccaatcgtggactccgcaatttgattttcatt
cgatgaatacaagttatggagaacatggtcacaatggtaatcatcaatatatggagtcgt
ctggaattcatggtcacatcccatatcaagggggaaatttcaacacaagaggtgttagca
gaggaggattttcctatacaagtggtaatcaatttcgtggacgtggcctatcgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAACTTTGCACCTGTGGTCATGCC 229 113 3662 Antisense
TGGTCATGCCCCATTTAAATCTGAA 347 551 3677 Antisense
TCAAACTCCGAGAATCCGTATGCGA 383 629 3709 Antisense
GTAGAAATCACTCGGATCCCAATCA 571 455 3758 Antisense
AGACAACATCCAACTTTCCGTCTCA 174 73 3878 Antisense
TCACAATTTTCCACCTCCGGATTTA 297 629 3900 Antisense
GAGCACATCGCATCAATCGTCAAGT 49 391 3954 Antisense
CACATTATAACATCCAACTGCCACA 454 195 4016 Antisense
GTACCAATCGTGGACTCCGCAATTT 642 457 4047 Antisense
GGAGTCGTCTGGAATTCATGGTCAC 445 515 4134 Antisense
CAATTTCGTGGACGTGGCCTATCGC 243 179 4231 Antisense
Sequence Source Affymetrix Proprietary Database