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[190169_s_at] tubulin beta chain

Description B0272.1 /REP_DB=WormBase Gene ID /WP=CE00850 /TR=SW:P41937 /GB=CAA86310.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=tubulin beta chain
Cluster 6grp_total > 06      4grp_total > 53      6grp_cgc > 21      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 706
1 2 3 4 range
A 731.9
(3)
P 		565.9
(1.3)
A 		297.8
(-1.4)
A 		140
(-3)
A 		592
B 758.5
(3)
P 		601.7
(1.6)
A 		382.1
(-0.3)
M 		82.3
(-3)
A 		676
C 788.7
(3)
P 		651.3
(1.7)
A 		427.3
(-0.5)
A 		164
(-3)
A 		625
avr 759.7
(3) 		606.3
(1.5) 		369.1
(-0.7) 		128.8
(-3) 		631

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 482
1 2 3 4 5 6 range
A 579.7
(3)
A 		430.6
(0.5)
A 		342.6
(-1)
A 		312.5
(-1.5)
A 		229.4
(-3)
A 		227
(-3)
A 		353
B 606
(3)
P 		478
(1.2)
A 		328.6
(-0.9)
A 		269.2
(-1.7)
A 		267.5
(-1.7)
A 		178.3
(-3)
A 		428
C 660.1
(3)
P 		376.4
(-0.6)
A 		437.4
(0.2)
A 		276.4
(-1.9)
A 		247.5
(-2.2)
M 		188.5
(-3)
A 		472
avr 615.3
(3) 		428.3
(0.3) 		369.5
(-0.5) 		286
(-1.7) 		248.1
(-2.3) 		197.9
(-3) 		417
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 249
1 2 3 4 range
A 266.5
(3)
P 		122.8
(-0.5)
A 		77.8
(-1.6)
A 		20.5
(-3)
A 		246
B 241.9
(3)
P 		148.6
(0.5)
A 		88.5
(-1.1)
M 		17.5
(-3)
A 		224
C 261.1
(3)
P 		187.2
(1.1)
A 		148.9
(0.1)
A 		27.6
(-3)
A 		234
avr 256.5
(3) 		152.9
(0.4) 		105.1
(-0.9) 		21.9
(-3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 106.9
(0.2)
A 		153.2
(3)
A 		74.6
(-1.8)
A 		79.3
(-1.5)
A 		69.2
(-2.1)
A 		55.3
(-3)
A 		98
B 210.9
(3)
P 		159.1
(0.8)
A 		79.8
(-2.4)
A 		71.3
(-2.8)
A 		108.7
(-1.2)
A 		66.5
(-3)
A 		144
C 244.7
(3)
P 		114.8
(-1.1)
A 		111.3
(-1.2)
A 		55.6
(-3)
A 		80.1
(-2.2)
M 		63.1
(-2.8)
A 		189
avr 187.5
(3) 		142.4
(0.9) 		88.6
(-1.7) 		68.7
(-2.7) 		86
(-1.8) 		61.6
(-3) 		126
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190169_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17011
Sequence Type Exemplar sequence
Representative Public ID B0272.1 NCBI
Target Description B0272.1 /REP_DB=WormBase Gene ID /WP=CE00850 /TR=SW:P41937 /GB=CAA86310.1 /SUBMIT=HINXTON /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_077184(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077184 NCBI Caenorhabditis elegans Tubulin, Beta family member (tbb-4) (tbb-4) mRNA, complete cds. 11/11 None
SNAP00000029672 ENSEMBL cdna:SNAP chromosome:CEL140:X:9434609:9436821:-1 11/11 None
GENEFINDER00000029677 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9434609:9436821:-1 11/11 None
B0272.1 ENSEMBL cdna:known chromosome:CEL140:X:9434396:9436823:-1 gene:B0272.1 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:9434608-9436821(-) 100.0 100.0
Public Domain and Genome References
Gene Title tubulin beta chain
Gene Symbol tbb-4
Ensembl B0272.1
Entrez Gene 181170 Entrez gene
SwissProt P41937 EMBL-EBI
WormBase CE00850 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262978_AT tubulin beta-1 chain (TUB1) at
CANINE:1584519_AT similar to tubulin, beta 2 cfa
CANINE_2:CFA.11276.1.S1_AT similar to tubulin, beta 2 cfa
CANINE_2:CFA.11276.1.S1_S_AT similar to tubulin, beta 2 cfa
HG-U95AV2:429_F_AT tubulin, beta 2 hs
HC-G110:429_F_AT tubulin, beta 2 hs
HU35KSUBD:RC_T03651_S_AT tubulin, beta 2 hs
HG-U133A:204141_AT tubulin, beta 2 hs
HG-U133_PLUS_2:204141_AT tubulin, beta 2 hs
HG-U133A_2:204141_AT tubulin, beta 2 hs
U133_X3P:G4507728_3P_AT tubulin, beta 2 hs
U133_X3P:HS.179661.3.S1_3P_X_AT tubulin, beta 2 hs
HG-U133A_2:209372_X_AT tubulin, beta 2 hs
HG-U133_PLUS_2:209372_X_AT tubulin, beta 2 hs
HG-U133A:209372_X_AT tubulin, beta 2 hs
HG-U95AV2:39331_AT tubulin, beta 2 hs
MU11KSUBB:MSA.5864.0_F_AT tubulin, beta 2 mm
MU11KSUBB:MSA.11746.0_F_AT tubulin, beta 2 mm
MG-U74AV2:94835_F_AT tubulin, beta 2 mm
MG-U74AV2:161614_R_AT tubulin, beta 2 mm
MOE430A:1427347_S_AT tubulin, beta 2 mm
MOUSE430A_2:1427347_S_AT tubulin, beta 2 mm
MOUSE430_2:1427347_S_AT tubulin, beta 2 mm
MOUSE430_2:1427838_AT tubulin, beta 2 mm
MOE430A:1427838_AT tubulin, beta 2 mm
MOUSE430A_2:1427838_AT tubulin, beta 2 mm
MU11KSUBA:M28739_RC_AT tubulin, beta 2 mm
MU11KSUBB:MSA.17913.0_S_AT Tubulin, beta 2, mRNA (cDNA clone IMAGE:2650284) mm
MU19KSUBC:TC39567_AT Tubulin, beta 2, mRNA (cDNA clone IMAGE:2650284) mm
RG-U34C:RC_AA818224_AT similar to tubulin, beta 2 rn
RAE230A:1373718_AT similar to tubulin, beta 2 rn
RAT230_2:1373718_AT similar to tubulin, beta 2 rn
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 CAA86310 Hypothetical protein B0272.1 [Caenorhabditis elegans] ref|NP_509585.1| Tubulin, Beta family member (tbb-4) [Caenorhabditis elegans] sp|P41937|TBB4_CAEEL Tubulin beta-4 chain (Beta-4 tubulin) emb|CAE69820.1| Hypothetical protein CBG16137 [Caenorhabditis briggsae] 0.0
blast CAD79598 beta-tubulin [Suberites domuncula] 0.0
blast BAB86853.1 beta-tubulin [Bombyx mori] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003008 EMBL-EBI Tubulin/FtsZ, GTPase 3.3E-112
Pfam IPR008280 EMBL-EBI Tubulin/FtsZ, C-terminal 1.5E-80
Sequence
Target Sequence 
>C. ELEGANS:190169_S_AT
cttcgtttcccgggacagctgaatgcagatttgcgcaaattagctgttaacatggttccg
ttcccacgtcttcatttcttcatgcccggatttgctccgctcacatccagaggaagccag
caatacagatcgctcaccgttccagagctcacacaacaaatgttcgacgccaagaatatg
atggcagcctgcgatccaagacacggtcgctacctgacagttgctgcaatgttccgcgga
agaatgagcatgaaagaagtcgacgagcaaatgctcaatgtgcaaaataaaaactcctcg
tactttgttgaatggattccaaacaacgtcaaaactgctgtttgtgatattccgccaaga
ggagtaaagatggcggcaacattcgtcggaaattccactgcaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCGTTTCCCGGGACAGCTGAATG 560 219 730 Antisense
AGCTGTTAACATGGTTCCGTTCCCA 487 81 771 Antisense
CTCCGCTCACATCCAGAGGAAGCCA 612 233 824 Antisense
CAGCAATACAGATCGCTCACCGTTC 474 203 847 Antisense
CGTTCCAGAGCTCACACAACAAATG 330 247 867 Antisense
TGATGGCAGCCTGCGATCCAAGACA 346 567 908 Antisense
TCGCTACCTGACAGTTGCTGCAATG 705 597 936 Antisense
GTTGCTGCAATGTTCCGCGGAAGAA 23 441 949 Antisense
AACTGCTGTTTGTGATATTCCGCCA 247 143 1062 Antisense
AAAGATGGCGGCAACATTCGTCGGA 274 123 1095 Antisense
ATTCGTCGGAAATTCCACTGCAATT 574 7 1110 Antisense
Sequence Source Affymetrix Proprietary Database