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[171948_x_at] Tubulin

Description AV178207_rc /REP_DB=TREMBL Accession /GB=AV178207 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk561g7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 31      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 06      6grp_total > 42      4grp_total > 58      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10732
1 2 3 4 range
A 10773.7
(-0.1)
P 		14380.1
(2.1)
P 		15931.4
(3)
P 		5985
(-3)
P 		9946
B 10243.4
(-0.2)
P 		15103.7
(3)
P 		14169.4
(2.4)
P 		5980.9
(-3)
P 		9123
C 9802
(-0.1)
P 		14748.4
(3)
P 		13126.7
(2)
P 		5199.3
(-3)
P 		9549
avr 10273
(0) 		14744.1
(3) 		14409.2
(2.8) 		5721.7
(-3) 		9022

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4773
1 2 3 4 5 6 range
A 9411.4
(-1)
P 		9469.5
(-0.9)
P 		11577.2
(3)
P 		9236.6
(-1.3)
P 		8352.8
(-2.9)
P 		8317.5
(-3)
P 		3260
B 10518.3
(1.1)
P 		9978.5
(0.3)
P 		11811.3
(3)
P 		8904.4
(-1.2)
P 		8183
(-2.3)
P 		7689.9
(-3)
P 		4121
C 9453.9
(0.9)
P 		9276.4
(0.6)
P 		10779.3
(3)
P 		8536.3
(-0.6)
P 		9805.7
(1.4)
P 		7038.5
(-3)
P 		3741
avr 9794.5
(0.4) 		9574.8
(0.1) 		11389.3
(3) 		8892.4
(-1) 		8780.5
(-1.2) 		7682
(-3) 		3707
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3699
1 2 3 4 range
A 3922.7
(2.6)
P 		3121.5
(1.1)
P 		4164.8
(3)
P 		876.1
(-3)
P 		3289
B 3266.6
(1.9)
P 		3730.3
(3)
P 		3283.4
(1.9)
P 		1274.5
(-3)
P 		2456
C 3244.8
(0.8)
P 		4240.3
(2.5)
P 		4575.1
(3)
P 		876.7
(-3)
P 		3698
avr 3478
(1.9) 		3697.4
(2.4) 		4007.8
(3) 		1009.1
(-3) 		2999

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1943
1 2 3 4 5 6 range
A 1734.9
(-3)
P 		3367.8
(3)
P 		2521.3
(-0.1)
P 		2342.6
(-0.8)
P 		2520.5
(-0.1)
P 		2025.1
(-1.9)
P 		1633
B 3659.9
(3)
P 		3321.4
(1.4)
P 		2868.1
(-0.7)
P 		2358.5
(-3)
P 		3324.7
(1.5)
P 		2867.5
(-0.7)
P 		1301
C 3504.1
(3)
P 		2830.5
(0.7)
P 		2743.5
(0.4)
P 		1716.7
(-3)
P 		3173
(1.9)
P 		2356.2
(-0.9)
P 		1787
avr 2966.3
(1.8) 		3173.2
(3) 		2711
(0.3) 		2139.3
(-3) 		3006.1
(2) 		2416.3
(-1.4) 		1034
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171948_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27651
Sequence Type Exemplar sequence
Representative Public ID AV178207 NCBI
Target Description AV178207_rc /REP_DB=TREMBL Accession /GB=AV178207 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk561g7 : 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_001025879(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001025879 NCBI Caenorhabditis elegans C47B2.3 (Tubulin) mRNA, complete cds. 11/11 None
SNAP00000041228 ENSEMBL cdna:SNAP chromosome:CEL140:I:12972934:12974383:-1 11/11 None
GENEFINDER00000041243 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12972934:12974383:-1 11/11 None
C47B2.3.1 ENSEMBL cdna:known chromosome:CEL140:I:12972812:12974391:-1 gene:C47B2.3 11/11 A 
C47B2.3.2 ENSEMBL cdna:known chromosome:CEL140:I:12972812:12974996:-1 gene:C47B2.3 11/11 A 
C47B2.3.4 ENSEMBL cdna:known chromosome:CEL140:I:12972842:12974867:-1 gene:C47B2.3 11/11 None
C47B2.3.3 ENSEMBL cdna:known chromosome:CEL140:I:12972842:12974897:-1 gene:C47B2.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_063950 2/11 Cross Hyb Matching Probes A 
SNAP00000037128 2/11 Cross Hyb Matching Probes None
GENEFINDER00000037131 2/11 Cross Hyb Matching Probes None
F44F4.11 2/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12972834-12973188(-) 86.32 86.32
Public Domain and Genome References
Gene Title Tubulin
Gene Symbol tba-2
Ensembl C47B2.3
Entrez Gene 173167 Entrez gene
SwissProt P34690 EMBL-EBI
WormBase CE17563 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16458_S_AT tubulin alpha-3/alpha-5 chain (TUA3) at
ATH1-121501:245915_S_AT tubulin alpha-3/alpha-5 chain (TUA3) at
CANINE:1604133_S_AT similar to tubulin, alpha 1 cfa
CANINE:1585260_AT similar to tubulin, alpha 1 cfa
CANINE_2:CFA.1372.3.S1_S_AT similar to tubulin, alpha 1 cfa
CANINE_2:CFAAFFX.13695.1.S1_AT similar to tubulin, alpha 1 cfa
CANINE_2:CFAAFFX.26512.1.S1_AT similar to tubulin, alpha 1 cfa
DROSOPHILA_2:1623910_AT Tubulin at 85E dm
DROSGENOME1:143389_F_AT Tubulin at 85E dm
CHICKEN:GGA.8347.1.S1_AT similar to Hypothetical protein MGC69264 gga
HG-U95AV2:40567_AT tubulin, alpha 3 hs
HG-U133A:209118_S_AT tubulin, alpha 3 hs
HG-U133_PLUS_2:209118_S_AT tubulin, alpha 3 hs
HG-U133A_2:209118_S_AT tubulin, alpha 3 hs
HG-FOCUS:209118_S_AT tubulin, alpha 3 hs
HUGENEFL:X01703_AT tubulin, alpha 3 hs
U133_X3P:G4929133_3P_S_AT tubulin, alpha 3 hs
HG-U95C:59760_F_AT tubulin, alpha 3 hs
MU11KSUBA:M13445_F_AT tubulin, alpha 1 mm
MU11KSUBB:MSA.22720.0_S_AT tubulin, alpha 1 mm
MU11KSUBB:MSA.22043.0_F_AT tubulin, alpha 1 mm
MU11KSUBB:MSA.1257.0_F_AT tubulin, alpha 1 mm
MG-U74AV2:98759_F_AT tubulin, alpha 1 mm
MG-U74AV2:100342_I_AT tubulin, alpha 1 mm
MG-U74AV2:100343_F_AT tubulin, alpha 1 mm
MG-U74BV2:164890_R_AT tubulin, alpha 1 mm
MOE430A:1418884_X_AT tubulin, alpha 1 mm
MOUSE430A_2:1418884_X_AT tubulin, alpha 1 mm
MOUSE430_2:1418884_X_AT tubulin, alpha 1 mm
MU19KSUBA:TC22656_F_AT Alpha-tubulin gene M-alpha-1, 3' end mm
MU19KSUBC:TC35664_AT Alpha-tubulin gene M-alpha-1, 3' end mm
MU19KSUBC:TC35909_F_AT Alpha-tubulin gene M-alpha-1, 3' end mm
MU19KSUBC:TC35910_AT Alpha-tubulin gene M-alpha-1, 3' end mm
RT-U34:V01227_S_AT tubulin, alpha 1 rn
RG-U34A:V01227_S_AT tubulin, alpha 1 rn
RG-U34A:J00797CDS_S_AT tubulin, alpha 1 rn
RG-U34B:RC_AA944275_I_AT tubulin, alpha 1 rn
RAE230A:1367579_A_AT tubulin, alpha 1 rn
RAT230_2:1367579_A_AT tubulin, alpha 1 rn
YEAST_2:1770044_AT Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; expressed at lower level than Tub1p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7018 microtubule-based movement inferred from electronic annotation QuickGO AmiGO
7049 cell cycle inferred from electronic annotation QuickGO AmiGO
46785 microtubule polymerization inferred from electronic annotation 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
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
Protein Similarities
Method ID Description E-Value
blast CAB16856 Hypothetical protein C47B2.3 [Caenorhabditis elegans] ref|NP_001021050.1| C47B2.3 [Caenorhabditis elegans] dbj|BAA03610.1| alpha-2 tubulin [Caenorhabditis elegans] sp|P34690|TBA2_CAEEL Tubulin alpha-2 chain 0.0
blast CAE63472 Hypothetical protein CBG07939 [Caenorhabditis briggsae] 0.0
blast CAB03001 Hypothetical protein F26E4.8 [Caenorhabditis elegans] ref|NP_492600.1| TuBulin, Alpha family member (tba-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 2.6E-110
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 8.7E-79
Sequence
Target Sequence 
>C. ELEGANS:171948_X_AT
gttgtgccaggaggtgatcttgccaaggtgccacgcgccgtctgcatgctctccaacact
accgccatcgctgaggcctggtctcgtctcgactacaagttcgacttgatgtacgccaag
cgtgccttcgtccactggtacgtnnnnnnnnnnnnnnnnnnnnnnnnnnncaccgaggct
cgtgaggacttggctg

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
GTTGTGCCAGGAGGTGATCTTGCCA 613 437 17 Antisense
GTGCCAGGAGGTGATCTTGCCAAGG 547 477 20 Antisense
GCCAGGAGGTGATCTTGCCAAGGTG 138 271 22 Antisense
GGAGGTGATCTTGCCAAGGTGCCAC 122 517 26 Antisense
GTCTCGTCTCGACTACAAGTTCGAC 470 469 97 Antisense
TCGTCTCGACTACAAGTTCGACTTG 226 287 100 Antisense
GTTCGACTTGATGTACGCCAAGCGT 653 441 115 Antisense
GACTTGATGTACGCCAAGCGTGCCT 113 371 119 Antisense
TTGATGTACGCCAAGCGTGCCTTCG 264 707 122 Antisense
CACCGAGGCTCGTGAGGACTTGGCT 235 195 187 Antisense
ACCGAGGCTCGTGAGGACTTGGCTG 185 87 188 Antisense
Sequence Source Affymetrix Proprietary Database