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[174883_s_at] tubulin

Description CEK119D7R_rc /REP_DB=TREMBL Accession /GB=D66613 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk119d7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 58      4grp_high_8_8 > 43      6grp_highest_nonorm > 91      6grp_total > 58      4grp_total > 53      6grp_highest_sub > Cu      6grp_cgc > 28      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 490
1 2 3 4 range
A 600.2
(3)
P 		516.3
(1.9)
P 		433.1
(0.9)
P 		124.8
(-3)
M 		475
B 578.4
(3)
P 		497.9
(2)
P 		381.4
(0.5)
P 		110.2
(-3)
P 		468
C 599.6
(3)
P 		595.6
(2.9)
P 		462.8
(1.1)
P 		167.7
(-3)
P 		432
avr 592.7
(3) 		536.6
(2.3) 		425.8
(0.8) 		134.2
(-3) 		459

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 353
1 2 3 4 5 6 range
A 230.7
(2.3)
P 		169.5
(0)
P 		214.8
(1.7)
P 		85.1
(-3)
P 		200.6
(1.2)
P 		251.3
(3)
P 		166
B 351.4
(1.4)
P 		189.9
(-1.5)
P 		188.2
(-1.5)
P 		104.3
(-3)
P 		163.8
(-1.9)
P 		437.8
(3)
P 		334
C 216.2
(-0.7)
P 		186.8
(-1.2)
P 		178.5
(-1.4)
P 		92.9
(-3)
P 		174.4
(-1.4)
P 		408.3
(3)
P 		315
avr 266.1
(0.8) 		182.1
(-1.1) 		193.8
(-0.8) 		94.1
(-3) 		179.6
(-1.1) 		365.8
(3) 		272
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 218.5
(3)
P 		112.1
(-0.2)
P 		113.2
(-0.2)
P 		18.3
(-3)
M 		200
B 184.5
(3)
P 		123
(0.7)
P 		88.4
(-0.6)
P 		23.5
(-3)
P 		161
C 198.5
(3)
P 		171.3
(2)
P 		161.3
(1.7)
P 		28.3
(-3)
P 		170
avr 200.5
(3) 		135.5
(0.8) 		121
(0.3) 		23.4
(-3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 42.5
(0.2)
P 		60.3
(2.9)
P 		46.8
(0.8)
P 		21.6
(-3)
P 		60.5
(2.9)
P 		61.2
(3)
P 		40
B 122.3
(1.2)
P 		63.2
(-1.4)
P 		45.7
(-2.2)
P 		27.6
(-3)
P 		66.5
(-1.3)
P 		163.3
(3)
P 		136
C 80.1
(0.1)
P 		57
(-1.1)
P 		45.4
(-1.6)
P 		18.7
(-3)
P 		56.4
(-1.1)
P 		136.7
(3)
P 		118
avr 81.6
(0.6) 		60.2
(-0.7) 		46
(-1.6) 		22.6
(-3) 		61.1
(-0.6) 		120.4
(3) 		98
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174883_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21121
Sequence Type Exemplar sequence
Representative Public ID CEK119D7R NCBI
Target Description CEK119D7R_rc /REP_DB=TREMBL Accession /GB=D66613 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk119d7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_065327(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065327 NCBI Caenorhabditis elegans C54C6.2 (tubulin) mRNA, complete cds. 11/11 A 
SNAP00000035307 ENSEMBL cdna:SNAP chromosome:CEL140:III:3538309:3540345:-1 11/11 None
GENEFINDER00000035320 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3538309:3541576:-1 11/11 None
C54C6.2 ENSEMBL cdna:known chromosome:CEL140:III:3538276:3541591:-1 gene:C54C6.2 11/11 A 
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
chrIII:3538285-3539408(-) 100.0 100.0
Public Domain and Genome References
Gene Title tubulin
Gene Symbol ben-1
Ensembl C54C6.2
Entrez Gene 175461 Entrez gene
SwissProt Q18817 EMBL-EBI
WormBase CE33770 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264699_AT expressed protein at
ATH1-121501:247442_S_AT tubulin beta-2/beta-3 chain (TUB2) at
ATGENOME1:12012_AT expressed protein at
CANINE_2:CFAAFFX.471.1.S1_S_AT similar to tubulin, beta, 2 cfa
DROSOPHILA_2:1636530_S_AT Tubulin at 56D dm
DROSGENOME1:143390_AT Tubulin at 56D dm
HG-U133A_2:208977_X_AT tubulin, beta, 2 hs
HG-U133A:208977_X_AT tubulin, beta, 2 hs
HG-U133_PLUS_2:208977_X_AT tubulin, beta, 2 hs
HG-FOCUS:208977_X_AT tubulin, beta, 2 hs
U133_X3P:G13278848_3P_A_AT tubulin, beta, 2 hs
U133_X3P:HS.251653.1.A1_3P_X_AT tubulin, beta, 2 hs
HG-U133A_2:213726_X_AT tubulin, beta, 2 hs
HG-U133_PLUS_2:213726_X_AT tubulin, beta, 2 hs
HG-U133A:213726_X_AT tubulin, beta, 2 hs
HG-U95AV2:33678_I_AT tubulin, beta, 2 hs
HG-U95AV2:33679_F_AT tubulin, beta, 2 hs
HG-U95D:90051_AT tubulin, beta, 2 hs
MOUSE430_2:1439416_X_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430A_2:1439416_X_AT RIKEN cDNA 4930542G03 gene mm
MOE430A:1439416_X_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430_2:1423642_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430A_2:1423642_AT RIKEN cDNA 4930542G03 gene mm
MOE430A:1423642_AT RIKEN cDNA 4930542G03 gene mm
MG-U74AV2:94016_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430_2:1456078_X_AT RIKEN cDNA 4930542G03 gene mm
MOE430A:1456078_X_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430A_2:1456078_X_AT RIKEN cDNA 4930542G03 gene mm
MU11KSUBA:C77864_RC_F_AT RIKEN cDNA 4930542G03 gene mm
MU11KSUBB:MSA.6932.0_F_AT RIKEN cDNA 4930542G03 gene mm
MU11KSUBB:MSA.4154.0_S_AT RIKEN cDNA 4930542G03 gene mm
MU11KSUBB:W15825_AT RIKEN cDNA 4930542G03 gene mm
MU11KSUBB:MSA.27932.0_F_AT RIKEN cDNA 4930542G03 gene mm
MOE430A:1438622_X_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430A_2:1438622_X_AT RIKEN cDNA 4930542G03 gene mm
MOUSE430_2:1438622_X_AT RIKEN cDNA 4930542G03 gene mm
MOE430A:1456031_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MOUSE430A_2:1456031_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MOUSE430_2:1456031_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MOE430A:1456470_X_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MOUSE430_2:1456470_X_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MOUSE430A_2:1456470_X_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MU19KSUBA:TC15519_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
MU19KSUBC:TC35864_AT RIKEN cDNA 4930542G03 gene (4930542G03Rik), mRNA mm
RG-U34A:RC_AA799591_AT tubulin, beta, 2 rn
RAE230A:1371390_AT tubulin, beta, 2 rn
RAT230_2:1371390_AT tubulin, beta, 2 rn
YEAST_2:1773992_AT Beta-tubulin; associates with alpha-tubulin (Tub1p and Tub3p) to form tubulin dimer, which polymerizes to form microtubules Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7018 microtubule-based movement inferred from electronic annotation QuickGO AmiGO
46785 microtubule polymerization inferred from electronic annotation QuickGO AmiGO
7017 microtubule-based process inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5874 microtubule inferred from electronic annotation QuickGO AmiGO
45298 tubulin inferred from electronic annotation QuickGO AmiGO
5874 microtubule inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3924 GTPase activity inferred from electronic annotation QuickGO AmiGO
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
5198 structural molecule activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB00853 Hypothetical protein C54C6.2 [Caenorhabditis elegans] ref|NP_497728.2| C54C6.2 [Caenorhabditis elegans] prf||1604364A beta tubulin 0.0
blast CAE64929 Hypothetical protein CBG09754 [Caenorhabditis briggsae] 0.0
blast AAA30100 beta-tubulin 0.0
blast AAM95351 beta-tubulin Cce-1b [Cylicocyclus elongatus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 3.7E-95
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 8.5E-80
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 2.7E-113
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 8.5E-80
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000035320 1 450-469
Sequence
Target Sequence 
>C. ELEGANS:174883_S_AT
gactgcggtctgtgatattccaccacgtgggctcaagatgtcggccacttttattggaaa
ctcgacagctattcaggagttgttcaagagaatctctgaacaatttacagcaatgttccg
ccgcaaggctttcctccattggtatactggcgaaggaatggacgagatggaattcactga
agctgagagtaatatgaacgatcttgtctcagaataccagcaataccaggaagcaactgc
agaggaagatggagaacttgatggaactgatggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTGCGGTCTGTGATATTCCACCA 554 375 18 Antisense
GATATTCCACCACGTGGGCTCAAGA 435 427 31 Antisense
TGGGCTCAAGATGTCGGCCACTTTT 591 551 45 Antisense
GGCCACTTTTATTGGAAACTCGACA 535 541 60 Antisense
CTCGACAGCTATTCAGGAGTTGTTC 330 233 78 Antisense
TTTCCTCCATTGGTATACTGGCGAA 373 669 147 Antisense
GTAATATGAACGATCTTGTCTCAGA 624 461 206 Antisense
GATCTTGTCTCAGAATACCAGCAAT 287 419 217 Antisense
ATACCAGCAATACCAGGAAGCAACT 350 21 231 Antisense
GGAAGCAACTGCAGAGGAAGATGGA 540 529 246 Antisense
GGAGAACTTGATGGAACTGATGGAG 566 519 268 Antisense
Sequence Source Affymetrix Proprietary Database