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[184577_at]

Description Y73F8A.16 /REP_DB=WormBase Gene ID /WP=CE22985 /TR=Q9NA56 /GB=CAB60541.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 10      6grp_cgc > 99      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 5.4
(-3)
A 		6.8
(-2.8)
A 		5.8
(-2.9)
A 		40.5
(3)
A 		35
B 4.2
(-2.8)
A 		6.8
(-2.2)
A 		3.2
(-3)
A 		30.1
(3)
A 		27
C 8.7
(-2.5)
A 		14.1
(-1.8)
A 		5.1
(-3)
A 		49.1
(3)
A 		44
avr 6.1
(-2.8) 		9.2
(-2.2) 		4.7
(-3) 		39.9
(3) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 5.5
(1.1)
A 		3.6
(-1)
A 		3.9
(-0.7)
A 		2.9
(-1.8)
A 		7.2
(3)
A 		1.8
(-3)
A 		5
B 2.7
(-2.4)
A 		5.5
(-0.8)
A 		1.9
(-2.9)
A 		2.6
(-2.5)
A 		12
(3)
A 		1.7
(-3)
A 		10
C 3.2
(-1.1)
A 		5.1
(3)
A 		4.8
(2.4)
A 		3
(-1.5)
A 		2.3
(-3)
A 		3.5
(-0.4)
A 		3
avr 3.8
(-1.2) 		4.7
(-0.1) 		3.5
(-1.5) 		2.8
(-2.4) 		7.2
(3) 		2.3
(-3) 		5
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2
(-2.3)
A 		1.5
(-3)
A 		1.5
(-3)
A 		5.9
(3)
A 		4
B 1.3
(-2.4)
A 		1.7
(-1.9)
A 		0.7
(-3)
A 		6.4
(3)
A 		6
C 2.9
(-2)
A 		4.1
(-0.9)
A 		1.8
(-3)
A 		8.3
(3)
A 		7
avr 2.1
(-2.1) 		2.4
(-1.8) 		1.3
(-3) 		6.9
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 1
(-1)
A 		1.3
(0)
A 		0.8
(-1.7)
A 		0.7
(-2)
A 		2.2
(3)
A 		0.4
(-3)
A 		2
B 0.9
(-2.5)
A 		1.8
(-1.2)
A 		0.5
(-3)
A 		0.7
(-2.7)
A 		4.9
(3)
A 		0.6
(-2.9)
A 		4
C 1.2
(0.6)
A 		1.6
(3)
A 		1.2
(0.6)
A 		0.6
(-3)
A 		0.7
(-2.4)
A 		1.2
(0.6)
A 		1
avr 1
(-2.1) 		1.6
(-0.2) 		0.8
(-2.7) 		0.7
(-3) 		2.6
(3) 		0.7
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184577_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8702
Sequence Type Exemplar sequence
Representative Public ID Y73F8A.16 NCBI
Target Description Y73F8A.16 /REP_DB=WormBase Gene ID /WP=CE22985 /TR=Q9NA56 /GB=CAB60541.1 /SUBMIT=HINXTON /CHR=4 /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_070450(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070450 NCBI Caenorhabditis elegans T BoX family member (tbx-39) (tbx-39) mRNA, complete cds. 11/11 A 
SNAP00000030818 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15323855:15325151:1 11/11 None
GENEFINDER00000030895 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15323855:15325151:1 11/11 None
Y73F8A.16 ENSEMBL cdna:known chromosome:CEL140:IV:15323855:15325151:1 gene:Y73F8A.16 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
chrIV:15323860-15325157(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol tbx-39
Ensembl Y73F8A.16
Entrez Gene 190678 Entrez gene
SwissProt Q9NA56 EMBL-EBI
WormBase CE22985 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60541 Hypothetical protein Y73F8A.16 [Caenorhabditis elegans] ref|NP_502851.1| T BoX family member (tbx-39) [Caenorhabditis elegans] sp|Q9NA56|TBX39_CAEEL Putative T-box protein 0.0
blast CAB60542 Hypothetical protein Y73F8A.17 [Caenorhabditis elegans] ref|NP_502852.1| T BoX family member (tbx-40) [Caenorhabditis elegans] sp|Q9NA55|TBX40_CAEEL Putative T-box protein 1.0E-165
blast AAF60830 Hypothetical protein Y59E9AR.5 [Caenorhabditis elegans] gb|AAF60829.1| T box family protein 30 [Caenorhabditis elegans] ref|NP_500749.1| Y59E9AR.5 [Caenorhabditis elegans] ref|NP_500750.1| T BoX family member (tbx-30) [Caenorhabditis elegans] sp|Q9N2K7|TBX30_CAEEL Putative T-box protein 1.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 9.4E-15
Sequence
Target Sequence 
>C. ELEGANS:184577_AT
gttcagcaattcacagctctatttgatgaaatccacaatcaattcgatccgaaaactaaa
caaaatagggttgcaaaaaatgttcagtatctttcaagtgtaccacaatttgcgatcaat
caaaaggaaaatattcatcagaatgctccagattacccagtctctcaatttccaaatcaa
tatccatatggttcctatccctattattatccatattttcaatccagccaacagtttcca
catctcaactattccatgaataactctatttattctgattcctctttccagtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCAGCAATTCACAGCTCTATTTG 316 445 835 Antisense
TCAGTATCTTTCAAGTGTACCACAA 460 623 918 Antisense
GTGTACCACAATTTGCGATCAATCA 709 485 932 Antisense
ATCAGAATGCTCCAGATTACCCAGT 572 27 971 Antisense
AATATCCATATGGTTCCTATCCCTA 570 173 1013 Antisense
GTTCCTATCCCTATTATTATCCATA 271 441 1025 Antisense
ATTATCCATATTTTCAATCCAGCCA 682 13 1040 Antisense
TTCAATCCAGCCAACAGTTTCCACA 415 685 1052 Antisense
TTTCCACATCTCAACTATTCCATGA 581 669 1069 Antisense
AACTCTATTTATTCTGATTCCTCTT 425 141 1096 Antisense
TTTATTCTGATTCCTCTTTCCAGTC 545 673 1103 Antisense
Sequence Source Affymetrix Proprietary Database