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[171830_x_at] geranylgeranyl transferase beta subunit

Description CEC049_rc /REP_DB=TREMBL Accession /GB=C08049 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk173h3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 39      4grp_highest_8_8 > 37      4grp_high_8_8 > 02      6grp_highest_nonorm > 83      6grp_total > 28      4grp_total > 07      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 118
1 2 3 4 range
A 728
(2.8)
P 		647.7
(-2.2)
P 		635.6
(-3)
P 		731.2
(3)
P 		96
B 613.2
(-3)
P 		678.5
(3)
P 		642.3
(-0.3)
P 		673.3
(2.5)
P 		65
C 677.1
(1.5)
P 		626.7
(-3)
P 		694
(3)
P 		630.7
(-2.6)
P 		67
avr 672.8
(1.8) 		651
(-3) 		657.3
(-1.6) 		678.4
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 422
1 2 3 4 5 6 range
A 514.3
(0.2)
P 		564.4
(1.4)
P 		377.4
(-3)
P 		507.5
(0)
P 		450.2
(-1.3)
P 		633.4
(3)
P 		256
B 585.5
(3)
P 		468.7
(-0.2)
P 		390.1
(-2.4)
P 		369.4
(-3)
P 		446.6
(-0.9)
P 		500.8
(0.6)
P 		216
C 743.5
(3)
P 		397.6
(-1.9)
P 		587.2
(0.8)
P 		321.9
(-3)
P 		575
(0.6)
P 		434.1
(-1.4)
P 		422
avr 614.4
(3) 		476.9
(-0.8) 		451.6
(-1.5) 		399.6
(-3) 		490.6
(-0.5) 		522.8
(0.4) 		215
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 265.1
(3)
P 		140.6
(-1.7)
P 		166.2
(-0.8)
P 		107
(-3)
P 		158
B 195.6
(3)
P 		167.6
(-0.2)
P 		148.8
(-2.4)
P 		143.5
(-3)
P 		52
C 224.1
(2.2)
P 		180.2
(0.3)
P 		241.9
(3)
P 		106.3
(-3)
P 		136
avr 228.3
(3) 		162.8
(-0.6) 		185.6
(0.7) 		118.9
(-3) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 211
1 2 3 4 5 6 range
A 94.8
(-2.4)
P 		200.7
(3)
P 		82.2
(-3)
P 		128.7
(-0.6)
P 		135.9
(-0.3)
P 		154.2
(0.6)
P 		119
B 203.7
(3)
P 		156
(0.4)
P 		94.7
(-3)
P 		97.9
(-2.8)
P 		181.4
(1.8)
P 		186.7
(2.1)
P 		109
C 275.6
(3)
P 		121.3
(-1.4)
P 		149.5
(-0.6)
P 		64.7
(-3)
P 		186
(0.5)
P 		145.3
(-0.7)
P 		211
avr 191.4
(3) 		159.3
(1) 		108.8
(-2.3) 		97.1
(-3) 		167.8
(1.5) 		162.1
(1.1) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171830_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27828
Sequence Type Exemplar sequence
Representative Public ID CEC049 NCBI
Target Description CEC049_rc /REP_DB=TREMBL Accession /GB=C08049 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk173h3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_064447(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064447 NCBI Caenorhabditis elegans Y48E1B.3 (Y48E1B.3) mRNA, complete cds. 10/11 A 
Y48E1B.3 ENSEMBL cdna:known chromosome:CEL140:II:13547660:13567867:-1 gene:Y48E1B.3 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000010059 1/11 Cross Hyb Matching Probes None
GENEFINDER00000010072 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title geranylgeranyl transferase beta subunit
Ensembl Y48E1B.3
Entrez Gene 174999 Entrez gene
SwissProt O18197 EMBL-EBI
WormBase CE22159 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19828_AT geranylgeranyl transferase type I beta subunit (GGT-IB) at
ATH1-121501:266985_AT geranylgeranyl transferase type I beta subunit (GGT-IB) at
CANINE_2:CFAAFFX.1287.1.S1_AT similar to protein geranylgeranyltransferase type I, beta subunit cfa
DROSOPHILA_2:1623853_AT subunit of type I geranylgeranyl transferase dm
DROSGENOME1:143774_AT subunit of type I geranylgeranyl transferase dm
HG-U95AV2:1275_AT protein geranylgeranyltransferase type I, beta subunit hs
HC-G110:1275_AT protein geranylgeranyltransferase type I, beta subunit hs
HG-U133_PLUS_2:206288_AT protein geranylgeranyltransferase type I, beta subunit hs
HG-U133A:206288_AT protein geranylgeranyltransferase type I, beta subunit hs
HG-FOCUS:206288_AT protein geranylgeranyltransferase type I, beta subunit hs
HG-U133A_2:206288_AT protein geranylgeranyltransferase type I, beta subunit hs
HUGENEFL:L25441_AT protein geranylgeranyltransferase type I, beta subunit hs
U133_X3P:G4826899_3P_AT protein geranylgeranyltransferase type I, beta subunit hs
MG-U74BV2:115249_AT protein geranylgeranyltransferase type I, beta subunit mm
MG-U74BV2:113270_AT protein geranylgeranyltransferase type I, beta subunit mm
MG-U74BV2:113271_AT protein geranylgeranyltransferase type I, beta subunit mm
MOE430B:1429770_AT protein geranylgeranyltransferase type I, beta subunit mm
MOUSE430_2:1429770_AT protein geranylgeranyltransferase type I, beta subunit mm
MOE430B:1429769_AT protein geranylgeranyltransferase type I, beta subunit mm
MOUSE430_2:1429769_AT protein geranylgeranyltransferase type I, beta subunit mm
MOE430B:1438229_AT protein geranylgeranyltransferase type I, beta subunit mm
MOUSE430_2:1438229_AT protein geranylgeranyltransferase type I, beta subunit mm
MOE430B:1438230_AT protein geranylgeranyltransferase type I, beta subunit mm
MOUSE430_2:1438230_AT protein geranylgeranyltransferase type I, beta subunit mm
MG-U74CV2:170736_AT protein geranylgeranyltransferase type I, beta subunit mm
MG-U74CV2:168952_I_AT Protein geranylgeranyltransferase type I, beta subunit (Pggt1b), mRNA mm
MU19KSUBC:TC38632_AT Protein geranylgeranyltransferase type I, beta subunit (Pggt1b), mRNA mm
RG-U34A:RC_AI235344_AT protein geranylgeranyltransferase type I, beta subunit rn
RAE230A:1369285_AT protein geranylgeranyltransferase type I, beta subunit rn
RAT230_2:1369285_AT protein geranylgeranyltransferase type I, beta subunit rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07699 Hypothetical protein Y48E1B.3 [Caenorhabditis elegans] ref|NP_496848.1| Y48E1B.3 [Caenorhabditis elegans] 0.0
blast CAE73330 Hypothetical protein CBG20759 [Caenorhabditis briggsae] 1.0E-177
blast XP_538560 PREDICTED: similar to protein geranylgeranyltransferase type I, beta subunit isoform 1 [Canis familiaris] 2.0E-66
Protein Domains
Database ID Description E-Value
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 0.0056
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 0.011
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 5.2E-9
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 7.8E-4
Pfam IPR001330 EMBL-EBI Prenyltransferase/squalene oxidase 8.5E-8
Sequence
Target Sequence 
>C. ELEGANS:171830_X_AT
ctattcagatattctccacacgtacttctccatcgccgcactctcactgctcggcgagcc
cnccgnnnnnnnnnnnnnnnnnnnnnnnnncgtgtcgatgcgagtagccgaacgtattgc
cagacttcaatttgattaannnnngcttaataattccgnnnnnctcgaagtttccacttg
ctatcgcctgtttaaac

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTATTCAGATATTCTCCACACGTAC 3 225 55 Antisense
TCAGATATTCTCCACACGTACTTCT 184 623 59 Antisense
CGTGTCGATGCGAGTAGCCGAACGT 627 243 145 Antisense
GATGCGAGTAGCCGAACGTATTGCC 37 415 151 Antisense
GCGAGTAGCCGAACGTATTGCCAGA 631 289 154 Antisense
GAGTAGCCGAACGTATTGCCAGACT 216 399 156 Antisense
GTAGCCGAACGTATTGCCAGACTTC 23 455 158 Antisense
AGCCGAACGTATTGCCAGACTTCAA 306 83 160 Antisense
GAACGTATTGCCAGACTTCAATTTG 363 347 164 Antisense
GTATTGCCAGACTTCAATTTGATTA 341 453 168 Antisense
TCCACTTGCTATCGCCTGTTTAAAC 312 589 227 Antisense
Sequence Source Affymetrix Proprietary Database