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[192348_s_at] farnesyltransferase alpha subunit

Description R02D3.5 /REP_DB=WormBase Gene ID /WP=CE18099 /TR=O44501 /GB=AAB94144.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=farnesyltransferase alpha subunit
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 89      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 83      6grp_total > 95      4grp_total > 52      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 399
1 2 3 4 range
A 509.6
(1.4)
P 		481.6
(0.3)
P 		550.7
(3)
P 		397.9
(-3)
P 		153
B 459.4
(0.9)
P 		517.3
(3)
P 		475.6
(1.5)
P 		351.5
(-3)
P 		166
C 561.5
(1.5)
P 		661.6
(3)
P 		525.2
(0.9)
P 		263.1
(-3)
P 		399
avr 510.2
(1.8) 		553.5
(3) 		517.2
(2) 		337.5
(-3) 		216

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 259
1 2 3 4 5 6 range
A 521.1
(3)
P 		402
(-2.3)
P 		385
(-3)
P 		478.9
(1.1)
P 		507.1
(2.4)
P 		478.3
(1.1)
P 		136
B 456
(-0.1)
P 		420.2
(-1.9)
P 		399.2
(-3)
P 		468
(0.6)
P 		515.4
(3)
P 		462.8
(0.3)
P 		116
C 452.2
(-3)
P 		485
(-2)
P 		524.4
(-0.7)
P 		500.2
(-1.5)
P 		497
(-1.6)
P 		643.6
(3)
P 		191
avr 476.4
(-0.4) 		435.7
(-3) 		436.2
(-3) 		482.4
(0) 		506.5
(1.6) 		528.2
(3) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 185.5
(3)
P 		104.5
(-0.8)
P 		144
(1)
P 		58.2
(-3)
P 		127
B 146.5
(3)
P 		127.7
(1.4)
P 		110.2
(-0)
P 		74.9
(-3)
P 		72
C 185.9
(2.8)
P 		190.2
(3)
P 		183.1
(2.7)
P 		44.4
(-3)
P 		146
avr 172.6
(3) 		140.8
(1.3) 		145.8
(1.6) 		59.2
(-3) 		113

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 96.1
(-1.9)
P 		143
(2.1)
P 		83.8
(-3)
P 		121.5
(0.3)
P 		153
(3)
P 		116.4
(-0.2)
P 		69
B 158.7
(0.3)
P 		139.9
(-0.7)
P 		96.9
(-3)
P 		124
(-1.6)
P 		209.4
(3)
P 		172.6
(1)
P 		113
C 167.6
(0.5)
P 		148
(-0.5)
P 		133.5
(-1.3)
P 		100.6
(-3)
P 		160.8
(0.1)
P 		215.4
(3)
P 		115
avr 140.8
(0.1) 		143.6
(0.3) 		104.7
(-3) 		115.4
(-2.1) 		174.4
(3) 		168.1
(2.5) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192348_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10526
Sequence Type Exemplar sequence
Representative Public ID R02D3.5 NCBI
Target Description R02D3.5 /REP_DB=WormBase Gene ID /WP=CE18099 /TR=O44501 /GB=AAB94144.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=farnesyltransferase alpha subunit
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_067481(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067481 NCBI Caenorhabditis elegans R02D3.5 (R02D3.5) mRNA, complete cds. 11/11 None
GENEFINDER00000011024 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:237962:240298:-1 11/11 None
R02D3.5.3 ENSEMBL cdna:known chromosome:CEL140:IV:237463:240307:-1 gene:R02D3.5 11/11 None
R02D3.5.2 ENSEMBL cdna:known chromosome:CEL140:IV:237486:240309:-1 gene:R02D3.5 11/11 None
R02D3.5.1 ENSEMBL cdna:known chromosome:CEL140:IV:237486:240307:-1 gene:R02D3.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011014 6/11 Cross Hyb Matching Probes None
SNAP00000011015 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:237961-240298(-) 100.0 100.0
Public Domain and Genome References
Gene Title farnesyltransferase alpha subunit
Ensembl R02D3.5
Entrez Gene 176840 Entrez gene
SwissProt O44501 EMBL-EBI
WormBase CE18099 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16550_AT farnesyltransferase alpha subunit, putative / FTA, putative / protein farnesyltransferase, putative at
ATH1-121501:251464_AT farnesyltransferase alpha subunit, putative / FTA, putative / protein farnesyltransferase, putative at
CANINE:1604329_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
CANINE:1589231_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
CANINE_2:CFA.11110.1.A1_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
CANINE_2:CFA.18192.1.S1_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
CANINE_2:CFA.18192.1.S1_S_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
CANINE_2:CFAAFFX.9009.1.S1_AT similar to farnesyltransferase, CAAX box, alpha isoform c cfa
DROSOPHILA_2:1635482_AT dm
DROSGENOME1:154362_AT dm
CHICKEN:GGA.16685.1.S1_AT farnesyltransferase, CAAX box, alpha gga
HG-U95AV2:1499_AT farnesyltransferase, CAAX box, alpha hs
HC-G110:1499_AT farnesyltransferase, CAAX box, alpha hs
HG-U133_PLUS_2:209471_S_AT farnesyltransferase, CAAX box, alpha hs
HG-U133A:209471_S_AT farnesyltransferase, CAAX box, alpha hs
HG-U133A_2:209471_S_AT farnesyltransferase, CAAX box, alpha hs
PLASMODIUM_ANOPHELES:200090_AT farnesyltransferase, CAAX box, alpha hs
HG-U133_PLUS_2:200090_AT farnesyltransferase, CAAX box, alpha hs
HG-U133A_2:200090_AT farnesyltransferase, CAAX box, alpha hs
HG-FOCUS:200090_AT farnesyltransferase, CAAX box, alpha hs
HG-U133B:200090_AT farnesyltransferase, CAAX box, alpha hs
HG-U133A:200090_AT farnesyltransferase, CAAX box, alpha hs
U133_X3P:200090_AT farnesyltransferase, CAAX box, alpha hs
HU35KSUBA:RC_AA043219_AT farnesyltransferase, CAAX box, alpha hs
HG-U95AV2:1772_S_AT farnesyltransferase, CAAX box, alpha hs
HC-G110:1772_S_AT farnesyltransferase, CAAX box, alpha hs
HUGENEFL:L10413_AT farnesyltransferase, CAAX box, alpha hs
HUGENEFL:L00634_S_AT farnesyltransferase, CAAX box, alpha hs
U133_X3P:G292030_3P_A_AT farnesyltransferase, CAAX box, alpha hs
U133_X3P:HS.19058.0.A1_3P_X_AT farnesyltransferase, CAAX box, alpha hs
U133_X3P:HS.19058.0.A1_3P_AT farnesyltransferase, CAAX box, alpha hs
U133_X3P:HS.138381.1.A1_3P_X_AT farnesyltransferase, CAAX box, alpha hs
HG-U133_PLUS_2:230808_AT farnesyltransferase, CAAX box, alpha hs
HG-U133B:230808_AT farnesyltransferase, CAAX box, alpha hs
HG-U95B:43175_AT farnesyltransferase, CAAX box, alpha hs
MU11KSUBA:D49744_S_AT farnesyltransferase, CAAX box, alpha mm
MG-U74AV2:98121_AT farnesyltransferase, CAAX box, alpha mm
MOE430A:1417465_AT farnesyltransferase, CAAX box, alpha mm
MOUSE430A_2:1417465_AT farnesyltransferase, CAAX box, alpha mm
MOUSE430_2:1417465_AT farnesyltransferase, CAAX box, alpha mm
MOE430B:1447904_S_AT farnesyltransferase, CAAX box, alpha mm
MOUSE430_2:1447904_S_AT farnesyltransferase, CAAX box, alpha mm
RG-U34A:M81225_AT farnesyltransferase, CAAX box, alpha rn
RAE230A:1367824_AT farnesyltransferase, CAAX box, alpha rn
RAT230_2:1367824_AT farnesyltransferase, CAAX box, alpha rn
YEAST_2:1771472_AT Alpha subunit of both the farnesyltransferase and type I geranylgeranyltransferase that catalyze prenylation of proteins containing a CAAX consensus motif; essential protein required for membrane localization of Ras proteins and a-factor Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
18346 protein amino acid prenylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8318 protein prenyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB94144 Hypothetical protein R02D3.5 [Caenorhabditis elegans] ref|NP_499882.1| R02D3.5 [Caenorhabditis elegans] 0.0
blast CAE58515 Hypothetical protein CBG01666 [Caenorhabditis briggsae] 1.0E-152
blast CAE58515 Hypothetical protein CBG01666 [Caenorhabditis briggsae] 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 3.9E-12
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 2.3E-14
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 1.3E-13
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 5.9E-8
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 6.4E-8
Pfam IPR002088 EMBL-EBI Protein prenyltransferase, alpha subunit 1.1E-5
Sequence
Target Sequence 
>C. ELEGANS:192348_S_AT
gtggcagcaccgtcaatgggttgtacggactttcaaggttccactggagaaagagctcac
atttgctcttcacatgcttcttctcgataatcgcaacaattcggcgtataattatcgcta
ttttctgatgactctctacgataagacggaggatgcgagccagcttgacattgagatcaa
cctcgccaagaagttcattgagaatattccgaacaacgaaagtgcctggaactacctcgc
agggcttctcatcacaaatggagtaacctcgaacagtgatgttgtcagttttgtggagga
tttgtatgagacaactcctgaagagaaacggtcaccattccttcttgcatttatcgccga
tatgatgctcgaaaatattgaaaaccaaaagtctgcggaagaaagcgctgggcgcgctaa
aaagctctacaaggatcttcaatcgatcgacccggttcgagtcaactactaccgccatca
gagtcttcttgctcaaacgatgctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGCAGCACCGTCAATGGGTTGTA 699 491 462 Antisense
GTACGGACTTTCAAGGTTCCACTGG 568 457 484 Antisense
GAGCTCACATTTGCTCTTCACATGC 660 387 514 Antisense
TCTTCACATGCTTCTTCTCGATAAT 190 617 528 Antisense
GGAGGATGCGAGCCAGCTTGACATT 142 517 609 Antisense
CGAAAGTGCCTGGAACTACCTCGCA 588 251 678 Antisense
CGCAGGGCTTCTCATCACAAATGGA 306 255 699 Antisense
AAGAGAAACGGTCACCATTCCTTCT 10 125 782 Antisense
ATTCCTTCTTGCATTTATCGCCGAT 212 7 798 Antisense
TCGATCGACCCGGTTCGAGTCAACT 331 603 904 Antisense
GAGTCTTCTTGCTCAAACGATGCTC 452 399 942 Antisense
Sequence Source Affymetrix Proprietary Database