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[191433_s_at] antiviral protein SKI2 like

Description F01G4.3 /REP_DB=WormBase Gene ID /WP=CE20651 /TR=Q19103 /GB=CAA92767.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=antiviral protein SKI2 like
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 58      4grp_high_8_8 > 57      6grp_highest_nonorm > 91      6grp_total > 69      4grp_total > 61      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 321.6
(3)
P 		282.7
(1.6)
P 		260.4
(0.8)
P 		157.1
(-3)
P 		165
B 248.9
(1.9)
P 		189.2
(-1.7)
P 		266.7
(3)
P 		167.6
(-3)
P 		99
C 284
(2.1)
P 		190.1
(-1.3)
P 		310.5
(3)
P 		142.2
(-3)
A 		168
avr 284.8
(3) 		220.7
(0) 		279.2
(2.7) 		155.6
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 157
1 2 3 4 5 6 range
A 175.1
(-0.4)
P 		206.6
(2.6)
P 		147.9
(-3)
P 		179.6
(0)
P 		211
(3)
P 		202.3
(2.2)
P 		63
B 243
(3)
P 		229
(2.1)
P 		163.5
(-2)
P 		147.3
(-3)
P 		170.3
(-1.6)
P 		232.5
(2.3)
P 		96
C 204.3
(-1.2)
P 		203.2
(-1.3)
P 		171.5
(-2.6)
P 		161.9
(-3)
P 		196.6
(-1.5)
P 		303.8
(3)
P 		142
avr 207.5
(0.3) 		212.9
(0.7) 		161
(-3) 		162.9
(-2.9) 		192.6
(-0.8) 		246.2
(3) 		85
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 117.1
(3)
P 		61.4
(-0.6)
P 		68.1
(-0.1)
P 		23
(-3)
P 		94
B 79.4
(3)
P 		46.7
(-1.5)
P 		61.8
(0.6)
P 		35.7
(-3)
P 		44
C 94
(2)
P 		54.7
(-0.8)
P 		108.2
(3)
P 		24
(-3)
A 		84
avr 96.8
(3) 		54.3
(-0.7) 		79.4
(1.5) 		27.6
(-3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 32.3
(-3)
P 		73.5
(3)
P 		32.2
(-3)
P 		45.5
(-1.1)
P 		63.7
(1.6)
P 		49.2
(-0.5)
P 		41
B 84.6
(2.7)
P 		76.2
(1.7)
P 		39.7
(-2.9)
P 		39
(-3)
P 		69.2
(0.8)
P 		86.7
(3)
P 		48
C 75.7
(0.7)
P 		62
(-0.4)
P 		43.6
(-2)
P 		32.6
(-3)
P 		63.6
(-0.3)
P 		101.7
(3)
P 		69
avr 64.2
(0.8) 		70.6
(1.7) 		38.5
(-3) 		39
(-2.9) 		65.5
(1) 		79.2
(3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191433_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9956
Sequence Type Exemplar sequence
Representative Public ID F01G4.3 NCBI
Target Description F01G4.3 /REP_DB=WormBase Gene ID /WP=CE20651 /TR=Q19103 /GB=CAA92767.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=antiviral protein SKI2 like
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_069683(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069683 NCBI Caenorhabditis elegans F01G4.3 (F01G4.3) mRNA, complete cds. 11/11 None
SNAP00000024048 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11135645:11142313:-1 11/11 None
GENEFINDER00000024053 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11135645:11142313:-1 11/11 None
F01G4.3 ENSEMBL cdna:known chromosome:CEL140:IV:11135562:11142248:-1 gene:F01G4.3 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
chrIV:11135650-11142254(-) 100.0 100.0
Public Domain and Genome References
Gene Title antiviral protein SKI2 like
Ensembl F01G4.3
Entrez Gene 178017 Entrez gene
SwissProt Q19103 EMBL-EBI
WormBase CE20651 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20436_AT DEAD/DEAH box helicase, putative at
ATH1-121501:252443_AT DEAD/DEAH box helicase, putative at
CANINE:1585873_AT similar to superkiller viralicidic activity 2-like homolog cfa
CANINE_2:CFA.11784.1.A1_S_AT similar to superkiller viralicidic activity 2-like homolog cfa
DROSOPHILA_2:1624956_AT twister dm
DROSGENOME1:154153_AT twister dm
HG-U133_PLUS_2:203727_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HG-FOCUS:203727_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HG-U133A:203727_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HG-U133A_2:203727_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HU35KSUBB:RC_AA074162_S_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HUGENEFL:U09877_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
U133_X3P:G13787218_3P_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
HG-U95AV2:37998_AT superkiller viralicidic activity 2-like (S. cerevisiae) hs
MG-U74AV2:103414_AT superkiller viralicidic activity 2-like (S. cerevisiae ) mm
MU11KSUBB:MSA.8395.0_S_AT superkiller viralicidic activity 2-like (S. cerevisiae ) mm
MOE430A:1422584_AT superkiller viralicidic activity 2-like (S. cerevisiae ) mm
MOUSE430A_2:1422584_AT superkiller viralicidic activity 2-like (S. cerevisiae ) mm
MOUSE430_2:1422584_AT superkiller viralicidic activity 2-like (S. cerevisiae ) mm
MU19KSUBA:TC14967_S_AT Superkiller viralicidic activity 2-like (S. cerevisiae ), mRNA (cDNA clone IMAGE:5007559) mm
RT-U34:RC_AA933158_AT superkiller viralicidic activity 2-like rn
RG-U34A:RC_AA933158_AT superkiller viralicidic activity 2-like rn
RAE230A:1399112_AT superkiller viralicidic activity 2-like rn
RAT230_2:1399112_AT superkiller viralicidic activity 2-like rn
YEAST_2:1779840_AT Putative RNA helicase, involved in exosome mediated 3' to 5' mRNA degradation and translation inhibition of non-poly(A) mRNAs; forms complex with Ski3p and Ski8p; required for repressing propagation of dsRNA viruses 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 CAA92767 Hypothetical protein F01G4.3 [Caenorhabditis elegans] ref|NP_502084.1| F01G4.3 [Caenorhabditis elegans] 0.0
blast CAE62010 Hypothetical protein CBG06018 [Caenorhabditis briggsae] 0.0
blast XP_688106 PREDICTED: similar to superkiller viralicidic activity 2-like [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 2.8E-13
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 8.6E-40
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 8.6E-40
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 2.8E-13
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 8.6E-40
Sequence
Target Sequence 
>C. ELEGANS:191433_S_AT
gaaagtcttgaatatgagctgtccagcgatgcattgttgctcagtgaagaatatcataat
cgcctgaaagttcttgaagcccttaattttgtcgaacaaaagatggtcagtttgaaagga
cgaattggttgcgaaattcaccatcaagagcttctaatcactgaactcattttggattat
aaattccatcaacgatctccggccgaattggctgctcttctgtcaactcttacttgccaa
tataatagtggaagagaaatgcaatttggaggggatacggtgtttggtgaaattagtgaa
agtgtgaaatcagttctcacaagattagaatctgtggcatctaaacataaatctcaaatt
tctgatttgggatgtgaaattcgatttgatctgatggaagttgtgtatgaatgggcgaat
ggaacaccgttctatcaaatcatggaaatgactgattgtcaagaaggccttatcgttaag
tgtattcaacgattggatgaagtttgcaaagatgttagaaacgctggcagaattgttgga
gatcctgctctggttgaaaaaatggaagaagttagtgcatcaattcgacggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGTCTTGAATATGAGCTGTCCA 161 361 3166 Antisense
GAGCTGTCCAGCGATGCATTGTTGC 373 387 3181 Antisense
ATCGCCTGAAAGTTCTTGAAGCCCT 95 35 3224 Antisense
TTGAAGCCCTTAATTTTGTCGAACA 77 705 3239 Antisense
GCGAAATTCACCATCAAGAGCTTCT 156 289 3296 Antisense
ATAAATTCCATCAACGATCTCCGGC 77 25 3344 Antisense
CTTCTGTCAACTCTTACTTGCCAAT 117 219 3382 Antisense
GATTGTCAAGAAGGCCTTATCGTTA 467 435 3619 Antisense
ACGCTGGCAGAATTGTTGGAGATCC 535 89 3686 Antisense
TTGGAGATCCTGCTCTGGTTGAAAA 649 705 3701 Antisense
AAGTTAGTGCATCAATTCGACGGGA 209 157 3734 Antisense
Sequence Source Affymetrix Proprietary Database