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[190074_s_at] dna binding protein

Description C01F1.1 /REP_DB=WormBase Gene ID /WP=CE06742 /TR=Q17558 /GB=AAB00717.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=dna binding protein
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_highest_8_8 > 35      4grp_high_8_8 > 56      6grp_highest_nonorm > 80      6grp_total > 47      4grp_total > 63      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 251.7
(3)
P 		151.5
(-3)
P 		215.9
(0.9)
P 		172.6
(-1.7)
P 		100
B 236.9
(3)
P 		158.7
(-2.4)
P 		213.4
(1.4)
P 		150.3
(-3)
P 		87
C 267.2
(3)
P 		167
(-3)
P 		216.6
(-0)
P 		189.6
(-1.6)
P 		100
avr 251.9
(3) 		159.1
(-3) 		215.3
(0.6) 		170.8
(-2.2) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 192.6
(-1)
P 		229.9
(1)
P 		184.9
(-1.4)
P 		173.4
(-2)
P 		153.2
(-3)
P 		269
(3)
P 		116
B 284.1
(3)
P 		205.5
(-0.9)
P 		215.5
(-0.4)
P 		164.7
(-3)
P 		164
(-3)
P 		245.8
(1.1)
P 		120
C 293.7
(3)
P 		188.6
(-1.4)
P 		242.6
(0.9)
P 		214.1
(-0.3)
P 		150.3
(-3)
P 		239.2
(0.7)
P 		143
avr 256.8
(3) 		208
(0.1) 		214.3
(0.5) 		184.1
(-1.3) 		155.8
(-3) 		251.3
(2.7) 		101
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 91.6
(3)
P 		32.9
(-2.3)
P 		56.4
(-0.2)
P 		25.3
(-3)
P 		66
B 75.5
(3)
P 		39.2
(-2)
P 		49.5
(-0.6)
P 		32
(-3)
P 		44
C 88.5
(3)
P 		48
(-1.3)
P 		75.5
(1.6)
P 		32
(-3)
P 		57
avr 85.2
(3) 		40
(-1.9) 		60.5
(0.3) 		29.8
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 35.5
(-3)
P 		81.8
(3)
P 		40.3
(-2.4)
P 		44
(-1.9)
P 		46.2
(-1.6)
P 		65.5
(0.9)
P 		46
B 98.9
(3)
P 		68.4
(-0.3)
P 		52.3
(-2.1)
P 		43.6
(-3)
P 		66.6
(-0.5)
P 		91.7
(2.2)
P 		55
C 108.9
(3)
P 		57.6
(-1.7)
P 		61.7
(-1.3)
P 		43.1
(-3)
P 		48.6
(-2.5)
P 		80.1
(0.4)
P 		66
avr 81.1
(3) 		69.3
(1.1) 		51.4
(-1.8) 		43.6
(-3) 		53.8
(-1.4) 		79.1
(2.7) 		38
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190074_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4825
Sequence Type Exemplar sequence
Representative Public ID C01F1.1 NCBI
Target Description C01F1.1 /REP_DB=WormBase Gene ID /WP=CE06742 /TR=Q17558 /GB=AAB00717.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=dna binding protein
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_062355(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062355 NCBI Caenorhabditis elegans C01F1.1 (C01F1.1) mRNA, complete cds. 11/11 A 
SNAP00000028117 ENSEMBL cdna:SNAP chromosome:CEL140:II:4301601:4305148:1 11/11 None
GENEFINDER00000028121 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4301601:4305148:1 11/11 None
C01F1.1 ENSEMBL cdna:known chromosome:CEL140:II:4301599:4305269:1 gene:C01F1.1 11/11 A 
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
chrII:4301599-4305147(+) 98.13 100.0
Public Domain and Genome References
Gene Title dna binding protein
Ensembl C01F1.1
Entrez Gene 173764 Entrez gene
SwissProt Q17558 EMBL-EBI
WormBase CE06742 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604381_AT similar to Transcription initiation factor IIF alpha subunit (TFIIF-alpha) (Transcription initiation factor RAP74) (General transcription factor IIF polypeptide 1 74 kDa subunit protein) cfa
CANINE_2:CFA.257.1.S1_S_AT similar to Transcription initiation factor IIF alpha subunit (TFIIF-alpha) (Transcription initiation factor RAP74) (General transcription factor IIF polypeptide 1 74 kDa subunit protein) cfa
CANINE_2:CFAAFFX.28544.1.S1_S_AT similar to Transcription initiation factor IIF alpha subunit (TFIIF-alpha) (Transcription initiation factor RAP74) (General transcription factor IIF polypeptide 1 74 kDa subunit protein) cfa
DROSOPHILA_2:1640495_AT Transcription factor IIF dm
DROSGENOME1:154355_AT Transcription factor IIF dm
HG-U133_PLUS_2:202355_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A:202355_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-FOCUS:202355_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A_2:202355_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133_PLUS_2:202356_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A:202356_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A_2:202356_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A_2:202354_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133_PLUS_2:202354_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U133A:202354_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HU35KSUBC:RC_AA115477_S_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HUGENEFL:X64037_AT general transcription factor IIF, polypeptide 1, 74kDa hs
U133_X3P:G12652738_3P_A_AT general transcription factor IIF, polypeptide 1, 74kDa hs
U133_X3P:HS.68257.0.S1_3P_A_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U95AV2:36826_AT general transcription factor IIF, polypeptide 1, 74kDa hs
HG-U95E:71100_AT general transcription factor IIF, polypeptide 1, 74kDa hs
MU11KSUBA:AA154593_S_AT general transcription factor IIF, polypeptide 1 mm
MU11KSUBB:MSA.17602.0_S_AT general transcription factor IIF, polypeptide 1 mm
MU11KSUBB:MSA.30961.0_S_AT general transcription factor IIF, polypeptide 1 mm
MU11KSUBB:MSA.7111.0_S_AT general transcription factor IIF, polypeptide 1 mm
MG-U74AV2:103762_AT general transcription factor IIF, polypeptide 1 mm
MG-U74BV2:108354_AT general transcription factor IIF, polypeptide 1 mm
MOE430A:1417698_AT general transcription factor IIF, polypeptide 1 mm
MOUSE430A_2:1417698_AT general transcription factor IIF, polypeptide 1 mm
MOUSE430_2:1417698_AT general transcription factor IIF, polypeptide 1 mm
MOE430A:1417699_AT general transcription factor IIF, polypeptide 1 mm
MOUSE430A_2:1417699_AT general transcription factor IIF, polypeptide 1 mm
MOUSE430_2:1417699_AT general transcription factor IIF, polypeptide 1 mm
MU19KSUBA:TC24695_AT General transcription factor IIF, polypeptide 1, mRNA (cDNA clone MGC:36237 IMAGE:5026448) mm
RG-U34B:RC_AA955573_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RG-U34B:RC_AA955573_G_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RG-U34B:RC_AI012037_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAE230B:1385567_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAT230_2:1385567_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAE230B:1383627_A_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAT230_2:1383627_A_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAE230B:1393106_X_AT general transcription factor IIF, polypeptide 1, 74kDa rn
RAT230_2:1393106_X_AT general transcription factor IIF, polypeptide 1, 74kDa rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
45941 positive regulation of transcription inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
16563 transcriptional activator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB00717 Hypothetical protein C01F1.1 [Caenorhabditis elegans] ref|NP_494756.1| C01F1.1 [Caenorhabditis elegans] 0.0
blast CAE60114 Hypothetical protein CBG03654 [Caenorhabditis briggsae] 0.0
blast CAA78999 transcription factor IIF subunit [Xenopus laevis] gb|AAH70569.1| LOC398325 protein [Xenopus laevis] sp|Q04870|T2FA_XENLA Transcription initiation factor IIF alpha subunit (TFIIF-alpha) (Transcription initiation factor RAP74) 5.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR008851 EMBL-EBI Transcription initiation factor IIF, alpha subunit 1.0E-126
Pfam IPR008851 EMBL-EBI Transcription initiation factor IIF, alpha subunit 4.0E-41
Sequence
Target Sequence 
>C. ELEGANS:190074_S_AT
gccgcgagtacgactacatttctgacagtggaactgattctgaccgtgaacaagttccat
cagacgaaaaaatcgagaaacaactagtcggagttgctgaagaagaaggagcacgtgaat
ctgatagcagtgaatctgaagatgatttaacgaagaaattaatgaaaccatatggtgata
agaaaaaaggaaatgatattgaagaacgtgattcatctggaacagattctgatgtttccg
acactgaaaaactcgattctgtagtttttatgaaggctaacaaggatggagaaggcggct
cgggaggaaccggaaaaaaacgtccaccaactgaagattctgatcttaaaatggataatc
ttggtccgagtgatgcgaaaaaagcgaaaccggctgttaaatttgaggaaggactcaatg
aggaaactgttcgcagatatttgcgtcgtaaaccgcatacaacgaaggaactcctccaca
aaatgaacggaaaatgcggaaatatgagcaaatctgaaatggtaacccaactggcttcaa
ttctgaaagcaatcgaaccgaatcaatctcgacaattg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGCGAGTACGACTACATTTCTGA 616 285 830 Antisense
GTACGACTACATTTCTGACAGTGGA 193 459 837 Antisense
CGTGAACAAGTTCCATCAGACGAAA 458 245 874 Antisense
ACTAGTCGGAGTTGCTGAAGAAGAA 90 101 912 Antisense
GAAGGAGCACGTGAATCTGATAGCA 105 335 934 Antisense
AGAACGTGATTCATCTGGAACAGAT 645 73 1032 Antisense
AGATTCTGATGTTTCCGACACTGAA 506 65 1053 Antisense
ACACTGAAAAACTCGATTCTGTAGT 568 107 1070 Antisense
GGAGAAGGCGGCTCGGGAGGAACCG 603 493 1117 Antisense
GGTCCGAGTGATGCGAAAAAAGCGA 626 501 1192 Antisense
CGAACCGAATCAATCTCGACAATTG 541 251 1383 Antisense
Sequence Source Affymetrix Proprietary Database