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[190869_s_at] WD domain, G-beta repeats

Description T01E8.4 /REP_DB=WormBase Gene ID /WP=CE02308 /TR=Q22071 /GB=CAA88747.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeats
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 95      6grp_total > 97      4grp_total > 30      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 334
1 2 3 4 range
A 688.2
(3)
P 		529.4
(-0.6)
P 		424.4
(-3)
P 		569.7
(0.3)
P 		264
B 758.1
(3)
P 		528.5
(-1.5)
P 		451.1
(-3)
P 		596
(-0.2)
P 		307
C 666.1
(1.7)
P 		452.1
(-3)
P 		453.1
(-3)
P 		723.6
(3)
P 		272
avr 704.1
(3) 		503.3
(-1.6) 		442.9
(-3) 		629.8
(1.3) 		261

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 575
1 2 3 4 5 6 range
A 584.1
(-1.8)
P 		487.6
(-3)
P 		606.2
(-1.6)
P 		799.2
(0.7)
P 		814.8
(0.9)
P 		988.4
(3)
P 		501
B 575.3
(-1.3)
P 		429.1
(-3)
P 		496.8
(-2.2)
P 		556.7
(-1.5)
P 		852.1
(2)
P 		936.5
(3)
P 		507
C 522.3
(-1.8)
P 		413.7
(-3)
P 		525.5
(-1.8)
P 		544.5
(-1.6)
P 		891.4
(2.1)
P 		971.5
(3)
P 		558
avr 560.6
(-1.7) 		443.5
(-3) 		542.8
(-1.9) 		633.5
(-0.8) 		852.8
(1.7) 		965.5
(3) 		522
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 167
1 2 3 4 range
A 250.6
(3)
P 		114.9
(-1.9)
P 		110.9
(-2)
P 		83.4
(-3)
P 		167
B 241.7
(3)
P 		130.5
(-1.9)
P 		104.5
(-3)
P 		127
(-2)
P 		137
C 220.5
(3)
P 		130
(-2.5)
P 		157.9
(-0.8)
P 		122
(-3)
P 		99
avr 237.6
(3) 		125.1
(-2.3) 		124.4
(-2.4) 		110.8
(-3) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 242
1 2 3 4 5 6 range
A 107.7
(-3)
P 		173.4
(-0.1)
P 		132
(-1.9)
P 		202.7
(1.1)
P 		245.9
(3)
P 		240.6
(2.8)
P 		138
B 200.2
(-0.9)
P 		142.8
(-2.4)
P 		120.6
(-3)
P 		147.5
(-2.3)
P 		346.2
(2.9)
P 		349.2
(3)
P 		229
C 193.6
(-0.7)
P 		126.2
(-2.5)
P 		133.7
(-2.3)
P 		109.5
(-3)
P 		288.4
(2)
P 		325.2
(3)
P 		216
avr 167.2
(-1.7) 		147.5
(-2.4) 		128.8
(-3) 		153.2
(-2.2) 		293.5
(2.6) 		305
(3) 		176
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190869_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2654
Sequence Type Exemplar sequence
Representative Public ID T01E8.4 NCBI
Target Description T01E8.4 /REP_DB=WormBase Gene ID /WP=CE02308 /TR=Q22071 /GB=CAA88747.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeats
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_063806(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063806 NCBI Caenorhabditis elegans T01E8.4 (T01E8.4) mRNA, complete cds. 11/11 None
SNAP00000042904 ENSEMBL cdna:SNAP chromosome:CEL140:II:10236983:10239598:-1 11/11 None
GENEFINDER00000042907 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10236983:10240131:-1 11/11 None
T01E8.4 ENSEMBL cdna:known chromosome:CEL140:II:10236865:10239605:-1 gene:T01E8.4 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
chrII:10236979-10239595(-) 100.0 100.0
Public Domain and Genome References
Gene Title WD domain, G-beta repeats
Ensembl T01E8.4
Entrez Gene 174587 Entrez gene
SwissProt Q22071 EMBL-EBI
WormBase CE02308 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.26367.1.S1_AT similar to F-box/WD-repeat protein 9 (F-box and WD-40 domain protein 9) cfa
MG-U74BV2:115381_AT F-box and WD-40 domain protein 9 mm
MG-U74CV2:168470_F_AT F-box and WD-40 domain protein 9 mm
MOE430A:1428120_AT F-box and WD-40 domain protein 9 mm
MOUSE430A_2:1428120_AT F-box and WD-40 domain protein 9 mm
MOUSE430_2:1428120_AT F-box and WD-40 domain protein 9 mm
MOE430A:1425857_AT F-box and WD-40 domain protein 9, mRNA (cDNA clone IMAGE:5715019) mm
MOUSE430A_2:1425857_AT F-box and WD-40 domain protein 9, mRNA (cDNA clone IMAGE:5715019) mm
MOUSE430_2:1425857_AT F-box and WD-40 domain protein 9, mRNA (cDNA clone IMAGE:5715019) mm
MG-U74CV2:170745_I_AT F-box and WD-40 domain protein 9, mRNA (cDNA clone IMAGE:5715019) mm
RAE230A:1389106_AT F-box and WD-40 domain protein 9 (predicted) rn
RAT230_2:1389106_AT F-box and WD-40 domain protein 9 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA88747 Hypothetical protein T01E8.4 [Caenorhabditis elegans] ref|NP_496207.1| T01E8.4 [Caenorhabditis elegans] 0.0
blast CAE72904 Hypothetical protein CBG20219 [Caenorhabditis briggsae] 1.0E-146
blast CAE72904 Hypothetical protein CBG20219 [Caenorhabditis briggsae] 1.0E-131
blast CAE72904 Hypothetical protein CBG20219 [Caenorhabditis briggsae] 1.0E-120
blast XP_213838 PREDICTED: similar to Fbxw9 protein [Rattus norvegicus] 5.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.022
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.3
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.15
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.022
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.3
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.15
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 6.7E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.022
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.3
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.15
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000042907 2 82-104,119-141
Sequence
Target Sequence 
>C. ELEGANS:190869_S_AT
ccgtgaatgttggatctgcggcccagtgtatttcttgttctggaaatgagaatgaagttg
tgtgcacaacatttgcgaaacgggtcgctgtcattgattccagaacatttcaagtagtcg
ctgatcacaagctgcacaaaagagctgtaattgctttggctgttcaaggggataagattt
ttacgagtggagaagatagacttatgatgatggtagatcgacgaaatttcagtaaacctg
tgctttttgaatattctccaacagcatataaatcatgtctatcgcttcaatgtaatcaac
ttctaacatcaacatccgatggaaaagtcaagttgtatgatgcaaataatttcaacgttt
tgcagacatattcggtcggttcctatacccgtcaatcatttttggagcacggagcacact
tgattatggcgcgaagtttgaagcgtaattacacattcagtatctacagcccaggaacac
gtagtcagcagtggtgtgcttcacatgaattggccgcggagccagccaaatttgattatt
ccccatcatcgagaactctggcaattggcaatggtgatagctcaattctgttctgtct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGTGAATGTTGGATCTGCGGCCCA 346 203 605 Antisense
CGAAACGGGTCGCTGTCATTGATTC 375 243 680 Antisense
GTAGTCGCTGATCACAAGCTGCACA 88 457 718 Antisense
AATCAACTTCTAACATCAACATCCG 635 169 898 Antisense
GACATATTCGGTCGGTTCCTATACC 627 369 969 Antisense
TTCCTATACCCGTCAATCATTTTTG 251 699 984 Antisense
GGAGCACACTTGATTATGGCGCGAA 586 519 1015 Antisense
AGCCCAGGAACACGTAGTCAGCAGT 380 81 1072 Antisense
GGTGTGCTTCACATGAATTGGCCGC 168 499 1097 Antisense
AATTGGCCGCGGAGCCAGCCAAATT 564 173 1112 Antisense
GTGATAGCTCAATTCTGTTCTGTCT 351 485 1178 Antisense
Sequence Source Affymetrix Proprietary Database