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[193610_s_at] transcription initiation factor TFIID

Description W04A8.7 /REP_DB=WormBase Gene ID /WP=CE26022 /GEN=taf-1 /TR=Q9XUL9 /GB=CAC14425.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transcription initiation factor TFIID
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 57      4grp_highest_8_8 > 45      4grp_high_8_8 > 09      6grp_highest_nonorm > 91      6grp_total > 57      4grp_total > 23      6grp_highest_sub > Cu      6grp_cgc > 27      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 232
1 2 3 4 range
A 296
(3)
P 		189.6
(-1.7)
P 		159.8
(-3)
P 		266.6
(1.7)
P 		136
B 345.2
(1.9)
P 		157.3
(-3)
P 		206.8
(-1.7)
P 		389.3
(3)
P 		232
C 325.1
(3)
P 		249
(-3)
P 		252
(-2.8)
P 		275.8
(-0.9)
P 		76
avr 322.1
(3) 		198.6
(-3) 		206.2
(-2.6) 		310.6
(2.4) 		124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 226
1 2 3 4 5 6 range
A 271.5
(2.3)
P 		288.6
(3)
P 		162.4
(-2.4)
P 		167.1
(-2.2)
P 		147.4
(-3)
P 		274.1
(2.4)
P 		141
B 256.3
(-0.1)
P 		231.8
(-0.8)
P 		152.8
(-3)
P 		260.8
(-0)
P 		176
(-2.4)
P 		369.3
(3)
P 		217
C 219.8
(-1.3)
P 		183.2
(-2.3)
P 		162.9
(-2.8)
P 		156.7
(-3)
P 		165.5
(-2.8)
P 		373.5
(3)
P 		217
avr 249.2
(-0) 		234.5
(-0.5) 		159.4
(-3) 		194.9
(-1.8) 		163
(-2.9) 		339
(3) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 107.8
(3)
P 		41.2
(-2.8)
P 		41.8
(-2.8)
P 		39
(-3)
P 		69
B 110.1
(3)
P 		38.9
(-3)
P 		47.9
(-2.2)
P 		83
(0.7)
P 		71
C 107.6
(3)
P 		71.6
(-0.5)
P 		87.8
(1.1)
P 		46.5
(-3)
P 		61
avr 108.5
(3) 		50.6
(-3) 		59.2
(-2.1) 		56.2
(-2.4) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 50.1
(-1.7)
P 		102.6
(3)
P 		35.4
(-3)
P 		42.4
(-2.4)
P 		44.5
(-2.2)
P 		66.7
(-0.2)
P 		67
B 89.2
(0.1)
P 		77.2
(-0.6)
P 		37.1
(-3)
P 		69.1
(-1.1)
P 		71.5
(-0.9)
P 		137.7
(3)
P 		101
C 81.5
(0.2)
P 		55.9
(-1.4)
P 		41.5
(-2.4)
P 		31.5
(-3)
P 		53.6
(-1.6)
P 		125
(3)
P 		94
avr 73.6
(-0) 		78.6
(0.4) 		38
(-3) 		47.7
(-2.2) 		56.5
(-1.5) 		109.8
(3) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193610_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1532
Sequence Type Exemplar sequence
Representative Public ID W04A8.7 NCBI
Target Description W04A8.7 /REP_DB=WormBase Gene ID /WP=CE26022 /GEN=taf-1 /TR=Q9XUL9 /GB=CAC14425.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transcription initiation factor TFIID
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_061025(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061025 NCBI Caenorhabditis elegans TAF (TBP-associated transcription factor) family member (taf-1) (taf-1) mRNA, complete cds. 11/11 None
SNAP00000038356 ENSEMBL cdna:SNAP chromosome:CEL140:I:13876921:13895327:1 11/11 None
GENEFINDER00000038393 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13887193:13895411:1 11/11 None
W04A8.7 ENSEMBL cdna:known chromosome:CEL140:I:13869594:13895556:1 gene:W04A8.7 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
chrI:13869524-13895258(+) 99.0 100.0
Public Domain and Genome References
Gene Title transcription initiation factor TFIID
Gene Symbol taf-1
Ensembl W04A8.7
Entrez Gene 173257 Entrez gene
SwissProt Q9XUL9 EMBL-EBI
WormBase CE26022 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.26183.1.S1_AT similar to Transcription initiation factor TFIID subunit 1 (Transcription initiation factor TFIID 250 kDa subunit) (TAF(II)250) (TAFII-250) (TAFII250) (TBP-associated factor 250 kDa) (p250) (Cell cycle gene 1 protein) cfa
CANINE_2:CFAAFFX.26188.1.S1_AT similar to Transcription initiation factor TFIID subunit 1 (Transcription initiation factor TFIID 250 kDa subunit) (TAF(II)250) (TAFII-250) (TAFII250) (TBP-associated factor 250 kDa) (p250) (Cell cycle gene 1 protein) cfa
CANINE_2:CFAAFFX.26188.1.S1_S_AT similar to Transcription initiation factor TFIID subunit 1 (Transcription initiation factor TFIID 250 kDa subunit) (TAF(II)250) (TAFII-250) (TAFII250) (TBP-associated factor 250 kDa) (p250) (Cell cycle gene 1 protein) cfa
DROSGENOME1:143601_AT TBP-associated factor 1 dm
DROSOPHILA_2:1632256_AT TBP-associated factor 1 dm
CHICKEN:GGA.2857.1.S1_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa gga
HG-U95AV2:154_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HC-G110:154_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133_PLUS_2:216955_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133A_2:216955_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133A:216955_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133_PLUS_2:216711_S_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133A_2:216711_S_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-FOCUS:216711_S_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133A:216711_S_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HU35KSUBC:RC_N63111_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U95AV2:112_G_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HC-G110:112_G_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HUGENEFL:X07024_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HUGENEFL:D90359_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
U133_X3P:HS.1179.3.S1_3P_A_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
U133_X3P:HS.1179.2.S1_3P_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
U133_X3P:HS.1179.1.A1_3P_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133_PLUS_2:227205_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133B:227205_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U95AV2:37491_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U95C:62571_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133_PLUS_2:241982_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U133B:241982_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HG-U95D:83627_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
HU35KSUBC:RC_D20257_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
U133_X3P:HS.158560.0.A1_3P_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa hs
MOUSE430_2:1447417_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOE430B:1447417_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MU11KSUBB:MSA.31488.0_F_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MU11KSUBB:MSA.20591.0_F_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOE430A:1422695_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOUSE430A_2:1422695_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOUSE430_2:1422695_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOE430B:1455513_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOUSE430_2:1455513_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor mm
MOE430B:1458744_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, mRNA (cDNA clone MGC:107711 IMAGE:6833930) mm
MOUSE430_2:1458744_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, mRNA (cDNA clone MGC:107711 IMAGE:6833930) mm
MU11KSUBA:C79964_RC_F_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, mRNA (cDNA clone MGC:107711 IMAGE:6833930) mm
MU11KSUBA:C79964_RC_I_AT TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, mRNA (cDNA clone MGC:107711 IMAGE:6833930) mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
45944 positive regulation of transcription from RNA polymerase II promoter inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from direct assay QuickGO AmiGO
5669 transcription factor TFIID complex inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
16251 general RNA polymerase II transcription factor activity inferred from direct assay QuickGO AmiGO
4402 histone acetyltransferase activity inferred from sequence similarity QuickGO AmiGO
4674 protein serine/threonine kinase activity inferred from sequence similarity QuickGO AmiGO
3690 double-stranded DNA binding inferred from sequence similarity QuickGO AmiGO
4840 ubiquitin conjugating enzyme activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAC14425 Hypothetical protein W04A8.7 [Caenorhabditis elegans] emb|CAB04907.2| Hypothetical protein W04A8.7 [Caenorhabditis elegans] ref|NP_493426.1| TAF (TBP-associated transcription factor) family member (taf-1) [Caenorhabditis elegans] 0.0
blast CAE68007 Hypothetical protein CBG13620 [Caenorhabditis briggsae] 0.0
blast EAL28373 GA14575-PA [Drosophila pseudoobscura] 0.0
blast XP_683044 PREDICTED: similar to TBP-associated factor 1 isoform 1 [Danio rerio] 1.0E-178
Protein Domains
Database ID Description E-Value
Pfam IPR001487 EMBL-EBI Bromodomain 1.0E-21
Pfam IPR001487 EMBL-EBI Bromodomain 1.2E-16
Pfam IPR001487 EMBL-EBI Bromodomain 1.0E-21
Pfam IPR001487 EMBL-EBI Bromodomain 1.2E-16
Pfam IPR001487 EMBL-EBI Bromodomain 1.0E-21
Pfam IPR001487 EMBL-EBI Bromodomain 1.2E-16
Sequence
Target Sequence 
>C. ELEGANS:193610_S_AT
ttccgaaatctgcactattccatactcgtgtcgatccgaaaaagattccagcgtattatt
tgaaaatttccgatccaatggatttaagtataatggaacagaagtcgaaaagtcaagaat
acaaatcaattgatgagttcttgaaagatgcggagaagatttacacgaattcggtggttt
ttaacggagctgaaagtgtttatagtctgaaagcgaaggaaatgtttgagatggctgaga
tgttggttaaagatcaaatggatacacttggagaacttgaacgaaatattaatccatcag
ctattaatgatgctgctgctgcacaaagaggattagctatggattcggatgatcatatgg
atgaaatggaagatcatccgactgaagaggaagaagaggatgatgatgatgagattatgg
atgatgatatggatattgatgccactggttactcgtacgatcacgatgacaacgttgccg
tcggccaaattttcaacgacctggcaatgtcggattcagatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCGAAATCTGCACTATTCCATAC 673 695 4802 Antisense
TATTCCATACTCGTGTCGATCCGAA 447 665 4817 Antisense
GAACGAAATATTAATCCATCAGCTA 571 347 5080 Antisense
AGCTATTAATGATGCTGCTGCTGCA 217 79 5100 Antisense
GAGGATTAGCTATGGATTCGGATGA 282 403 5129 Antisense
GATATTGATGCCACTGGTTACTCGT 168 427 5233 Antisense
GGTTACTCGTACGATCACGATGACA 338 507 5248 Antisense
TCACGATGACAACGTTGCCGTCGGC 342 625 5262 Antisense
TTGCCGTCGGCCAAATTTTCAACGA 503 695 5276 Antisense
CAAATTTTCAACGACCTGGCAATGT 102 193 5287 Antisense
GACCTGGCAATGTCGGATTCAGATG 156 381 5299 Antisense
Sequence Source Affymetrix Proprietary Database