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[184250_s_at]

Description Y73F8A.17 /REP_DB=WormBase Gene ID /WP=CE22986 /TR=Q9NA55 /GB=CAB60542.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 49      4grp_total > 01      6grp_cgc > 08      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 174
1 2 3 4 range
A 3.4
(-3)
A 		22.8
(-1.3)
A 		31.2
(-0.6)
A 		73.1
(3)
A 		70
B 25
(2.9)
A 		8.6
(-3)
A 		9.3
(-2.8)
A 		25.4
(3)
P 		17
C 27.4
(-2.3)
A 		6.1
(-3)
A 		32.9
(-2.1)
A 		176.9
(3)
P 		171
avr 18.6
(-2.5) 		12.5
(-3) 		24.5
(-2.1) 		91.8
(3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 52.1
(3)
A 		5.1
(-3)
A 		10.1
(-2.3)
A 		4.9
(-3)
A 		21.3
(-0.9)
A 		35.5
(0.9)
A 		47
B 39.8
(3)
A 		4.2
(-3)
A 		19.9
(-0.4)
A 		6.1
(-2.7)
A 		35.9
(2.3)
A 		13
(-1.5)
A 		36
C 5.3
(-3)
A 		46.9
(2.4)
A 		6.9
(-2.8)
A 		35.1
(0.9)
A 		5.7
(-2.9)
A 		51.3
(3)
P 		46
avr 32.4
(2.7) 		18.7
(-1.2) 		12.3
(-3) 		15.4
(-2.1) 		21
(-0.5) 		33.3
(3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 1.2
(-3)
A 		4.9
(-0.7)
A 		8.2
(1.4)
A 		10.7
(3)
A 		10
B 8
(3)
A 		2.1
(-3)
A 		2.2
(-2.9)
A 		5.4
(0.4)
P 		6
C 9.1
(-1.4)
A 		1.8
(-3)
A 		11.5
(-0.9)
A 		29.8
(3)
P 		28
avr 6.1
(-1.5) 		2.9
(-3) 		7.3
(-0.9) 		15.3
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 9.6
(3)
A 		1.8
(-2.6)
A 		2.2
(-2.3)
A 		1.2
(-3)
A 		6.4
(0.7)
A 		8.7
(2.4)
A 		8
B 13.9
(2.7)
A 		1.4
(-3)
A 		4.8
(-1.5)
A 		1.6
(-2.9)
A 		14.6
(3)
A 		4.9
(-1.4)
A 		13
C 2
(-2.9)
A 		14.3
(1.9)
A 		1.8
(-3)
A 		7.1
(-0.9)
A 		1.9
(-3)
A 		17.2
(3)
P 		15
avr 8.5
(1.5) 		5.8
(-0.6) 		2.9
(-3) 		3.3
(-2.7) 		7.6
(0.8) 		10.3
(3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 184250_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8895
Sequence Type Exemplar sequence
Representative Public ID Y73F8A.17 NCBI
Target Description Y73F8A.17 /REP_DB=WormBase Gene ID /WP=CE22986 /TR=Q9NA55 /GB=CAB60542.1 /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), NM_070451(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 
NM_070451 NCBI Caenorhabditis elegans T BoX family member (tbx-40) (tbx-40) mRNA, complete cds. 11/11 A 
SNAP00000030818 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15323855:15325151:1 11/11 None
SNAP00000030819 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15326901:15328148:-1 11/11 None
GENEFINDER00000030895 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15323855:15325151:1 11/11 None
GENEFINDER00000030914 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15326901:15328148:-1 11/11 None
Y73F8A.16 ENSEMBL cdna:known chromosome:CEL140:IV:15323855:15325151:1 gene:Y73F8A.16 11/11 A 
Y73F8A.17 ENSEMBL cdna:known chromosome:CEL140:IV:15326901:15328148:-1 gene:Y73F8A.17 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:15326906-15328154(-) 100.0 100.0
Public Domain and Genome References
Gene Title

Gene Symbol tbx-39
tbx-40
Ensembl Y73F8A.16
Y73F8A.17
Entrez Gene 190678 Entrez gene
190679 Entrez gene
SwissProt Q9NA56 EMBL-EBI
Q9NA55 EMBL-EBI
WormBase CE22985 Wormbase
CE22986 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 0.0
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 1.0E-166
Protein Domains
Database ID Description E-Value
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 9.4E-15
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 1.5E-15
Sequence
Target Sequence 
>C. ELEGANS:184250_S_AT
gaatcgatcggaaattggaaatctaaatttcacaagaacgcaacttttgaaaatagattg
gatgggggaaacaagaggaaaaatactaattcgagagaagagccatcgtcaaaacgatca
aaaaatgaaacagaaattgctgttttggatatccttcaagttgcctcacaatcagaaaat
tataatgagtccacgaattctggaaggcttcaaaatgagatcagttcctctattcaccag
ttcccatcaacttcctatcaaaatcaatatccacatgcgtatccaacagtcaatactcca
ccaatttatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCGATCGGAAATTGGAAATCTA 205 327 526 Antisense
ATATCCTTCAAGTTGCCTCACAATC 339 21 674 Antisense
CTTCAAGTTGCCTCACAATCAGAAA 39 223 679 Antisense
GAGTCCACGAATTCTGGAAGGCTTC 7 401 712 Antisense
GGAAGGCTTCAAAATGAGATCAGTT 180 533 727 Antisense
ATGAGATCAGTTCCTCTATTCACCA 591 45 740 Antisense
TTCCCATCAACTTCCTATCAAAATC 70 699 766 Antisense
ATCAATATCCACATGCGTATCCAAC 3 27 788 Antisense
ATCCACATGCGTATCCAACAGTCAA 316 41 794 Antisense
TATCCAACAGTCAATACTCCACCAA 441 657 805 Antisense
ACAGTCAATACTCCACCAATTTATG 278 107 811 Antisense
Sequence Source Affymetrix Proprietary Database