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[188606_at]

Description T20B12.2 /REP_DB=WormBase Gene ID /WP=CE01408 /GEN=tbp-1 /TR=SW:P32085 /GB=AAA19055.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 55      4grp_high_8_8 > 19      6grp_highest_nonorm > 92      6grp_total > 98      4grp_total > 21      6grp_highest_sub > In      6grp_cgc > 79      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 170.7
(-3)
P 		204.5
(3)
P 		176.2
(-2)
P 		190.5
(0.5)
P 		34
B 177.4
(-2)
P 		168.5
(-3)
P 		173.5
(-2.4)
P 		222.1
(3)
P 		54
C 227.8
(3)
P 		180
(-0.8)
P 		152.2
(-3)
P 		210.6
(1.6)
P 		76
avr 192
(0.7) 		184.3
(-0.5) 		167.3
(-3) 		207.7
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 291
1 2 3 4 5 6 range
A 162.6
(-3)
P 		193.7
(-2.4)
P 		208.5
(-2.1)
P 		179.7
(-2.6)
P 		402.7
(2)
P 		453.5
(3)
P 		291
B 209.7
(-2.3)
P 		184
(-3)
P 		202.8
(-2.5)
P 		289.4
(-0.2)
P 		356.5
(1.6)
P 		406.6
(3)
P 		223
C 209.3
(-1.9)
P 		223.2
(-1.5)
P 		165.9
(-3)
P 		182.5
(-2.6)
P 		388.5
(2.8)
P 		395.4
(3)
P 		230
avr 193.9
(-3) 		200.3
(-2.8) 		192.4
(-3) 		217.2
(-2.3) 		382.6
(2) 		418.5
(3) 		226
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 62.1
(3)
P 		44.4
(-0.1)
P 		46.1
(0.2)
P 		27.9
(-3)
P 		34
B 56.6
(3)
P 		41.6
(-2.5)
P 		40.2
(-3)
P 		47.3
(-0.4)
P 		16
C 75.4
(3)
P 		51.7
(-0.6)
P 		53.1
(-0.4)
P 		35.5
(-3)
P 		40
avr 64.7
(3) 		45.9
(-1.1) 		46.5
(-0.9) 		36.9
(-3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 122
1 2 3 4 5 6 range
A 30
(-3)
P 		68.9
(-0.4)
P 		45.4
(-2)
P 		45.6
(-2)
P 		121.5
(3)
P 		110.4
(2.3)
P 		92
B 73
(-1.6)
P 		61.3
(-2.3)
P 		49.2
(-3)
P 		76.7
(-1.4)
P 		144.8
(2.6)
P 		151.6
(3)
P 		102
C 77.6
(-0.4)
P 		68.1
(-1)
P 		42.2
(-2.7)
P 		36.7
(-3)
P 		125.7
(2.6)
P 		132.4
(3)
P 		96
avr 60.2
(-2) 		66.1
(-1.6) 		45.6
(-3) 		53
(-2.5) 		130.7
(2.9) 		131.5
(3) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188606_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7378
Sequence Type Exemplar sequence
Representative Public ID T20B12.2 NCBI
Target Description T20B12.2 /REP_DB=WormBase Gene ID /WP=CE01408 /GEN=tbp-1 /TR=SW:P32085 /GB=AAA19055.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_066234(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066234 NCBI Caenorhabditis elegans TATA-Binding Protein family member (tbp-1) (tbp-1) mRNA, complete cds. 11/11 None
SNAP00000022560 ENSEMBL cdna:SNAP chromosome:CEL140:III:7383959:7385702:1 11/11 None
GENEFINDER00000022571 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7383959:7385702:1 11/11 None
T20B12.2.1 ENSEMBL cdna:known chromosome:CEL140:III:7383951:7386052:1 gene:T20B12.2 11/11 None
T20B12.2.2 ENSEMBL cdna:known chromosome:CEL140:III:7383953:7386052:1 gene:T20B12.2 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
chrIII:7383956-7385700(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol tbp-1
Ensembl T20B12.2
Entrez Gene 176054 Entrez gene
SwissProt P32085 EMBL-EBI
WormBase CE01408 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:265071_AT transcription initiation factor IID-2 (TFIID-2) / TATA-box factor 2 / TATA sequence-binding protein 2 (TBP2) at
ATGENOME1:17410_AT transcription initiation factor IID-2 (TFIID-2) / TATA-box factor 2 / TATA sequence-binding protein 2 (TBP2) at
CANINE:1605528_AT similar to TATA-box binding protein (TATA-box factor) (TATA binding factor) (TATA sequence-binding protein) (Transcription initiation factor TFIID TBP subunit) cfa
CANINE_2:CFA.677.1.S1_AT similar to TATA-box binding protein (TATA-box factor) (TATA binding factor) (TATA sequence-binding protein) (Transcription initiation factor TFIID TBP subunit) cfa
CANINE_2:CFA.677.2.S1_S_AT similar to TATA-box binding protein (TATA-box factor) (TATA binding factor) (TATA sequence-binding protein) (Transcription initiation factor TFIID TBP subunit) cfa
DROSOPHILA_2:1637663_AT TATA binding protein dm
DROSGENOME1:155047_AT TATA binding protein dm
CHICKEN:GGA.1006.1.S1_AT TATA box binding protein gga
CHICKEN:GGA.1006.1.S2_AT TATA box binding protein gga
CHICKEN:GGA.1006.2.S1_A_AT TATA box binding protein gga
HG-U133_PLUS_2:203135_AT TATA box binding protein hs
HG-U133A:203135_AT TATA box binding protein hs
HG-FOCUS:203135_AT TATA box binding protein hs
HG-U133A_2:203135_AT TATA box binding protein hs
HUGENEFL:X54993_S_AT TATA box binding protein hs
U133_X3P:G4507378_3P_AT TATA box binding protein hs
HG-U95AV2:41441_AT TATA box binding protein hs
HG-U95C:60706_AT TATA box binding protein hs
MOUSE430_2:1426469_A_AT TATA box binding protein mm
MOE430A:1426469_A_AT TATA box binding protein mm
MOUSE430A_2:1426469_A_AT TATA box binding protein mm
MU11KSUBA:U63933_S_AT TATA box binding protein mm
MU11KSUBB:MSA.35028.0_S_AT TATA box binding protein mm
MG-U74AV2:99950_AT TATA box binding protein mm
MG-U74CV2:133384_AT TATA box binding protein mm
MOE430A:1426470_AT TATA box binding protein mm
MOUSE430A_2:1426470_AT TATA box binding protein mm
MOUSE430_2:1426470_AT TATA box binding protein mm
MG-U74CV2:141039_R_AT TATA box binding protein, mRNA (cDNA clone MGC:5877 IMAGE:3584341) mm
RG-U34A:RC_AA891928_AT TATA box binding protein rn
RAE230A:1382035_AT TATA box binding protein rn
RAT230_2:1382035_AT TATA box binding protein rn
YEAST_2:1772121_AT TATA-binding protein, general transcription factor that interacts with other factors to form the preinitiation complex at promoters, essential for viability Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
6367 transcription initiation from RNA polymerase II promoter inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5669 transcription factor TFIID complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3702 RNA polymerase II transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA19055 Tata-binding protein protein 1 [Caenorhabditis elegans] ref|NP_498635.1| TATA-Binding Protein family member (tbp-1) [Caenorhabditis elegans] gb|AAG50207.1| transcription factor TFIID [Caenorhabditis elegans] sp|P32085|TBP_CAEEL TATA-box binding protein (TATA-box factor) (TATA binding factor) (TATA sequence-binding protein) (TBP) (Transcription initiation factor TFIID TBP subunit) gb|AAA03582.1| TATA-box binding protein 1.0E-173
blast CAE64435 Hypothetical protein CBG09138 [Caenorhabditis briggsae] 1.0E-155
Protein Domains
Database ID Description E-Value
Pfam IPR000814 EMBL-EBI Transcription factor TFIID 8.1E-44
Pfam IPR000814 EMBL-EBI Transcription factor TFIID 2.0E-44
Sequence
Target Sequence 
>C. ELEGANS:188606_AT
gagatgctctgacacatcaggctccggcaagtaacatcgctgccacaatggttccagcaa
ctccagcaagtcaattggatattccgatgccagctcttcagaacattgtctctacagtca
atttgggagttcaattggatttgaagaagattgcattgcacgcgagaaacgccgaataca
atccaaaacgtttcgcagcagtcattatgagaattcgtgaaccaagaacaactgctttaa
ttttttcgagtggaaaaatggtgtgcactggtgcgaagtcagaagaagcaagtcgattgg
cagcacgaaaatatgcgagaattgttcaaaagttgggatttcaggcgaaatttaccgaat
ttatggttcaaaacatggttggttcttgtgatgttcgttttccgattcaacttgaaggat
tgtgcattactcactctcagttcagtacttacgaaccagaattgttccctggattaattt
atcgtatggtcaaaccaagagttgtgctccttatttttgtgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATGCTCTGACACATCAGGCTCC 582 395 419 Antisense
ATCAGGCTCCGGCAAGTAACATCGC 545 23 434 Antisense
TGCCACAATGGTTCCAGCAACTCCA 139 587 459 Antisense
ATTGGATATTCCGATGCCAGCTCTT 461 3 492 Antisense
GCCAGCTCTTCAGAACATTGTCTCT 580 279 507 Antisense
GATTGCATTGCACGCGAGAAACGCC 204 435 567 Antisense
ATCCAAAACGTTTCGCAGCAGTCAT 709 37 599 Antisense
GGTTCTTGTGATGTTCGTTTTCCGA 369 507 799 Antisense
GAAGGATTGTGCATTACTCACTCTC 77 335 832 Antisense
ACTCACTCTCAGTTCAGTACTTACG 300 99 847 Antisense
GAGTTGTGCTCCTTATTTTTGTGTC 19 399 917 Antisense
Sequence Source Affymetrix Proprietary Database