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[189718_at] tubulin beta-chain

Description T04H1.9 /REP_DB=WormBase Gene ID /WP=CE13183 /TR=Q20823 /GB=CAB01587.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Tubulin (2 domains)
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 13      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 50      6grp_total > 14      4grp_total > 13      6grp_highest_sub > De      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 172
1 2 3 4 range
A 195.4
(2)
P 		121.1
(-1.2)
P 		80.3
(-3)
P 		217.5
(3)
P 		137
B 162
(-1.6)
P 		153.6
(-2)
P 		134.4
(-3)
P 		252
(3)
P 		118
C 156.7
(-0)
P 		137.2
(-1)
P 		96.9
(-3)
P 		217.5
(3)
P 		121
avr 171.4
(0.2) 		137.3
(-1.4) 		103.9
(-3) 		229
(3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 673
1 2 3 4 5 6 range
A 556.2
(0.9)
P 		765.8
(3)
P 		379.9
(-0.8)
P 		413
(-0.5)
P 		208
(-2.5)
P 		161.7
(-3)
P 		604
B 722.8
(3)
P 		661.3
(2.3)
P 		475
(0.3)
P 		409.4
(-0.4)
P 		252.9
(-2.1)
P 		168
(-3)
P 		555
C 834.2
(3)
P 		542.1
(0.4)
P 		583.2
(0.8)
P 		424.9
(-0.7)
P 		203.3
(-2.6)
P 		163.8
(-3)
P 		670
avr 704.4
(3) 		656.4
(2.5) 		479.4
(0.5) 		415.8
(-0.2) 		221.4
(-2.4) 		164.5
(-3) 		540
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 71.1
(3)
P 		26.3
(-2.4)
P 		21
(-3)
P 		31.8
(-1.7)
P 		50
B 51.7
(2.5)
P 		37.9
(-1.2)
P 		31.1
(-3)
P 		53.7
(3)
P 		23
C 51.9
(3)
P 		39.4
(-1.1)
P 		33.8
(-3)
P 		36.7
(-2)
P 		18
avr 58.2
(3) 		34.5
(-1.8) 		28.6
(-3) 		40.7
(-0.5) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 102.5
(-1.4)
P 		272.3
(3)
P 		82.7
(-1.9)
P 		104.8
(-1.3)
P 		62.8
(-2.4)
P 		39.4
(-3)
P 		233
B 251.5
(3)
P 		220.1
(2)
P 		115.3
(-1.3)
P 		108.4
(-1.5)
P 		102.7
(-1.7)
P 		62.7
(-3)
P 		189
C 309.2
(3)
P 		165.4
(-0.4)
P 		148.4
(-0.8)
P 		85.4
(-2.3)
P 		65.8
(-2.7)
P 		54.8
(-3)
P 		254
avr 221.1
(3) 		219.3
(2.9) 		115.5
(-0.8) 		99.5
(-1.3) 		77.1
(-2.1) 		52.3
(-3) 		169
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189718_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13706
Sequence Type Exemplar sequence
Representative Public ID T04H1.9 NCBI
Target Description T04H1.9 /REP_DB=WormBase Gene ID /WP=CE13183 /TR=Q20823 /GB=CAB01587.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Tubulin (2 domains)
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_073674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073674 NCBI Caenorhabditis elegans Tubulin, Beta family member (tbb-6) (tbb-6) mRNA, complete cds. 11/11 None
SNAP00000005340 ENSEMBL cdna:SNAP chromosome:CEL140:V:12264756:12265849:1 11/11 None
GENEFINDER00000005360 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12265012:12265849:1 10/11 None
T04H1.9 ENSEMBL cdna:known chromosome:CEL140:V:12264392:12265956:1 gene:T04H1.9 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
chrV:12264391-12265849(+) 100.0 100.0
Public Domain and Genome References
Gene Title tubulin beta-chain
Gene Symbol tbb-6
Ensembl T04H1.9
Entrez Gene 179680 Entrez gene
SwissProt Q20823 EMBL-EBI
WormBase CE36500 Wormbase
Functional Annotations
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 CAB01587 Hypothetical protein T04H1.9 [Caenorhabditis elegans] emb|CAB01575.2| Hypothetical protein T04H1.9 [Caenorhabditis elegans] ref|NP_506075.2| Tubulin, Beta family member (tbb-6) [Caenorhabditis elegans] 0.0
blast CAB01587 Hypothetical protein T04H1.9 [Caenorhabditis elegans] emb|CAB01575.2| Hypothetical protein T04H1.9 [Caenorhabditis elegans] ref|NP_506075.2| Tubulin, Beta family member (tbb-6) [Caenorhabditis elegans] 1.0E-169
blast CAB00853 Hypothetical protein C54C6.2 [Caenorhabditis elegans] ref|NP_497728.2| C54C6.2 [Caenorhabditis elegans] prf||1604364A beta tubulin 1.0E-135
blast CAB01587 Hypothetical protein T04H1.9 [Caenorhabditis elegans] emb|CAB01575.2| Hypothetical protein T04H1.9 [Caenorhabditis elegans] ref|NP_506075.2| Tubulin, Beta family member (tbb-6) [Caenorhabditis elegans] 1.0E-135
blast AAM95350 beta-tubulin Cce-1a [Cylicocyclus elongatus] 1.0E-134
blast XP_392313 PREDICTED: similar to beta-1 tubulin [Apis mellifera] 1.0E-91
blast CAE72883 Hypothetical protein CBG20196 [Caenorhabditis briggsae] 1.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 3.6E-89
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 2.6E-37
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 1.2E-64
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 2.6E-37
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 3.6E-17
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 2.6E-37
Sequence
Target Sequence 
>C. ELEGANS:189718_AT
taacatacgcgtctcttgcattatctggaataacaactttccaaagattcaaaggaaatc
tgaaaacggatattcgcaagctcaacactgcaggttcacctcgccttcatttcttcatga
cttcattcgctccagtatatggaaaaggaattatagattgtcaggcattcagtatttctg
atcttacccaacaagttctcgatgccaagaatataatgacttgtaaccataatcagggaa
aattcttgtcttctgctattatttaccgtggtcaacagactgagaagaaggatgctgaac
aaatcatcagtgtggaaaatgaagatccatctgaaatgattgagtctttaccaaagagca
caaataccgatgtctgtgatattccatcgagaggactcaagacatctgctactttcattg
caaactccactgcaatccaggaaccactcaaacgtatttctaagcagtttgcaggcctgt
tccgtcgcaaagcattccttcattggtacacgatggaagagtcggagttcactgacgccg
aga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAACATACGCGTCTCTTGCATTATC 189 639 674 Antisense
GCAAGCTCAACACTGCAGGTTCACC 288 321 749 Antisense
TCATGACTTCATTCGCTCCAGTATA 78 621 788 Antisense
CTTACCCAACAAGTTCTCGATGCCA 499 221 856 Antisense
GGGAAAATTCTTGTCTTCTGCTATT 148 495 909 Antisense
TTCTGCTATTATTTACCGTGGTCAA 98 693 924 Antisense
AGGACTCAAGACATCTGCTACTTTC 450 55 1065 Antisense
TGCTACTTTCATTGCAAACTCCACT 585 579 1080 Antisense
TCCACTGCAATCCAGGAACCACTCA 467 589 1099 Antisense
CTAAGCAGTTTGCAGGCCTGTTCCG 679 225 1133 Antisense
GAGTCGGAGTTCACTGACGCCGAGA 235 395 1192 Antisense
Sequence Source Affymetrix Proprietary Database