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[189833_at] tubulin beta chain

Description F40F4.5 /REP_DB=WormBase Gene ID /WP=CE04535 /TR=Q20221 /GB=AAA81432.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=tubulin beta chain
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 13      4grp_highest_8_8 > 56      4grp_high_8_8 > 35      6grp_highest_nonorm > 61      6grp_total > 13      4grp_total > 45      6grp_highest_sub > De      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 359
1 2 3 4 range
A 614.8
(3)
P 		614.7
(3)
P 		365.3
(-1.9)
P 		308.4
(-3)
P 		306
B 636.4
(3)
P 		555.7
(1.1)
P 		387.6
(-3)
P 		385.6
(-3)
P 		251
C 628.4
(3)
P 		582
(2.2)
P 		365.4
(-1.5)
P 		277.1
(-3)
P 		351
avr 626.5
(3) 		584.1
(2.2) 		372.8
(-2) 		323.7
(-3) 		303

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 357
1 2 3 4 5 6 range
A 618.3
(3)
P 		544.5
(1.8)
P 		349.2
(-1.5)
P 		487.9
(0.8)
P 		380.4
(-1)
P 		261.4
(-3)
P 		357
B 476.8
(2.7)
P 		487.9
(3)
P 		438.5
(1.7)
P 		355.8
(-0.5)
P 		321.7
(-1.4)
P 		263.8
(-3)
P 		224
C 443.1
(1.8)
P 		412.4
(0.9)
P 		484.3
(3)
P 		454.9
(2.1)
P 		277.2
(-3)
P 		339.4
(-1.2)
P 		207
avr 512.7
(3) 		481.6
(2.2) 		424
(0.6) 		432.9
(0.9) 		326.4
(-2) 		288.2
(-3) 		225
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 223.9
(3)
P 		133.4
(-0)
P 		95.5
(-1.3)
P 		45.1
(-3)
P 		179
B 202.9
(3)
P 		137.2
(-0.3)
P 		89.8
(-2.6)
P 		82.2
(-3)
P 		121
C 208
(3)
P 		167.3
(1.5)
P 		127.3
(-0)
P 		46.7
(-3)
P 		161
avr 211.6
(3) 		146
(0.4) 		104.2
(-1.2) 		58
(-3) 		154

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 130
1 2 3 4 5 6 range
A 114
(-0.7)
P 		193.7
(3)
P 		76
(-2.4)
P 		123.7
(-0.2)
P 		114.8
(-0.6)
P 		63.6
(-3)
P 		130
B 165.9
(3)
P 		162.4
(2.7)
P 		106.5
(-2)
P 		94.2
(-3)
P 		130.7
(0.1)
P 		98.4
(-2.6)
P 		72
C 164.2
(3)
P 		125.8
(-0.1)
P 		123.3
(-0.3)
P 		91.5
(-2.9)
P 		89.7
(-3)
P 		113.6
(-1.1)
P 		75
avr 148
(1.9) 		160.6
(3) 		101.9
(-2.1) 		103.1
(-2) 		111.7
(-1.3) 		91.9
(-3) 		69
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189833_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18249
Sequence Type Exemplar sequence
Representative Public ID F40F4.5 NCBI
Target Description F40F4.5 /REP_DB=WormBase Gene ID /WP=CE04535 /TR=Q20221 /GB=AAA81432.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=tubulin beta chain
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_076154(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076154 NCBI Caenorhabditis elegans TuBulin, Alpha family member (tba-9) (tba-9) mRNA, complete cds. 11/11 None
GENEFINDER00000025272 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3252952:3256165:1 11/11 None
SNAP00000025264 ENSEMBL cdna:SNAP chromosome:CEL140:X:3254214:3256165:1 11/11 None
F40F4.5 ENSEMBL cdna:known chromosome:CEL140:X:3252952:3256165:1 gene:F40F4.5 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
chrX:3252952-3256166(+) 100.0 100.0
Public Domain and Genome References
Gene Title tubulin beta chain
Gene Symbol tba-9
Ensembl F40F4.5
Entrez Gene 185538 Entrez gene
SwissProt Q20221 EMBL-EBI
WormBase CE30131 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261129_AT tubulin alpha-2/alpha-4 chain (TUA4) at
CANINE:1600634_AT similar to Tubulin alpha-3 chain (Alpha-tubulin 3) cfa
CANINE:1586133_AT similar to Tubulin alpha-3 chain (Alpha-tubulin 3) cfa
CANINE_2:CFA.18569.1.S1_S_AT similar to Tubulin alpha-3 chain (Alpha-tubulin 3) cfa
CANINE_2:CFAAFFX.23072.1.S1_S_AT similar to Tubulin alpha-3 chain (Alpha-tubulin 3) cfa
CANINE:1600634_AT similar to tubulin, alpha 2 isoform 2 cfa
CANINE:1586133_AT similar to tubulin, alpha 2 isoform 2 cfa
CANINE_2:CFA.18569.1.S1_S_AT similar to tubulin, alpha 2 isoform 2 cfa
CANINE_2:CFAAFFX.23072.1.S1_S_AT similar to tubulin, alpha 2 isoform 2 cfa
DROSGENOME1:143388_AT Tubulin at 84B dm
DROSOPHILA_2:1623580_AT Tubulin at 84B dm
CHICKEN:GGAAFFX.6598.1.S1_AT similar to Tubulin alpha-3/alpha-7 chain (Alpha-tubulin 3/7) gga
HG-U95AV2:685_F_AT alpha-tubulin isotype H2-alpha hs
HC-G110:685_F_AT alpha-tubulin isotype H2-alpha hs
HU35KSUBA:RC_AA435720_F_AT alpha-tubulin isotype H2-alpha hs
HU35KSUBA:RC_AA435720_I_AT alpha-tubulin isotype H2-alpha hs
HUGENEFL:K03460_AT alpha-tubulin isotype H2-alpha hs
U133_X3P:G306450_3P_X_AT alpha-tubulin isotype H2-alpha hs
U133_X3P:HS.75318.1.S1_3P_S_AT alpha-tubulin isotype H2-alpha hs
HG-U133A_2:216323_X_AT alpha-tubulin isotype H2-alpha hs
HG-U133_PLUS_2:216323_X_AT alpha-tubulin isotype H2-alpha hs
HG-U133A:216323_X_AT alpha-tubulin isotype H2-alpha hs
MU11KSUBA:M13442_F_AT tubulin, alpha 3 mm
MU11KSUBB:MSA.1258.0_F_AT tubulin, alpha 3 mm
MG-U74AV2:160420_R_AT tubulin, alpha 3 mm
MOE430A:1416311_S_AT tubulin, alpha 3 mm
MOUSE430A_2:1416311_S_AT tubulin, alpha 3 mm
MOUSE430_2:1416311_S_AT tubulin, alpha 3 mm
MOE430A:1448296_X_AT tubulin, alpha 3 mm
MOUSE430A_2:1448296_X_AT tubulin, alpha 3 mm
MOUSE430_2:1448296_X_AT tubulin, alpha 3 mm
MG-U74CV2:167535_AT Tubulin, alpha 3 (Tuba3), mRNA mm
MU19KSUBB:TC28278_AT Tubulin, alpha 3 (Tuba3), mRNA mm
MU19KSUBC:TC38775_AT Tubulin, alpha 3 (Tuba3), mRNA mm
MU19KSUBC:TC40827_F_AT Tubulin, alpha 3 (Tuba3), mRNA mm
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
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 AAA81432 Tubulin, alpha protein 9 [Caenorhabditis elegans] ref|NP_508555.2| TuBulin, Alpha family member (tba-9) [Caenorhabditis elegans] 0.0
blast CAE68397 Hypothetical protein CBG14166 [Caenorhabditis briggsae] 0.0
blast C24903 tubulin alpha-3 chain - Chinese hamster 0.0
blast XP_784462 PREDICTED: similar to tubulin, alpha 1 [Strongylocentrotus purpuratus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 4.7E-104
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 2.9E-75
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 6.5E-98
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 6.9E-16
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 9.5E-16
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 8.4E-13
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 2.3E-91
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 2.9E-75
Sequence
Target Sequence 
>C. ELEGANS:189833_AT
gtccgacctacaccaatctgaatcgactgattgcgcaagttatcagttcagtcaccgcat
cacttcgttttgatggcgctttgaatgtggatctgacagagtttcaaactaatctggttc
catacccaagaattcattttcctctgacaacatatgccccaattatttccgctgaaaaag
cataccacgagcaaatgacggcttgctgtttactgtacagaggagatgtagttccgaaag
acgtcaacgctgcaattgcatcagttaaaacaaaacgttcgattcaatttgtcgactggt
gcccaacaggattcaaggtcggcatcaactaccaacctccaactgtggtccctggtgctg
atctctcaaagctccaacgcgctgtgtgcatgctctccaacacaacagctatcgcagagg
catgggctcgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCGACCTACACCAATCTGAATCG 433 475 779 Antisense
GCAAGTTATCAGTTCAGTCACCGCA 452 321 813 Antisense
GTCACCGCATCACTTCGTTTTGATG 667 465 829 Antisense
ATTTTCCTCTGACAACATATGCCCC 66 15 914 Antisense
CAACATATGCCCCAATTATTTCCGC 209 189 926 Antisense
AATGACGGCTTGCTGTTTACTGTAC 543 161 972 Antisense
AAGACGTCAACGCTGCAATTGCATC 515 153 1016 Antisense
GTCGACTGGTGCCCAACAGGATTCA 92 473 1069 Antisense
TGCTGATCTCTCAAAGCTCCAACGC 334 583 1134 Antisense
CATGCTCTCCAACACAACAGCTATC 438 211 1167 Antisense
GCTATCGCAGAGGCATGGGCTCGTC 492 301 1186 Antisense
Sequence Source Affymetrix Proprietary Database