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[190477_at] Brachyury

Description T07C4.2 /REP_DB=WormBase Gene ID /WP=CE21157 /GEN=tbx-8 /TR=SW:Q22292 /GB=CAA82578.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Brachyury
Cluster 6grp_total > 78      4grp_total > 36      6grp_cgc > 49      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 88.4
(-0.5)
A 		114.3
(3)
A 		83.3
(-1.2)
A 		70.2
(-3)
A 		44
B 78.2
(-0.9)
A 		139.9
(3)
A 		56.4
(-2.2)
A 		44.4
(-3)
A 		96
C 84.7
(0.8)
A 		68
(-0.6)
A 		40.2
(-3)
A 		110.6
(3)
A 		70
avr 83.8
(0) 		107.4
(3) 		60
(-3) 		75.1
(-1.1) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 61
1 2 3 4 5 6 range
A 54.6
(-2.3)
A 		47
(-3)
A 		49.9
(-2.7)
A 		85.4
(0.8)
A 		81.9
(0.4)
A 		107.8
(3)
A 		61
B 81
(0.9)
A 		53.9
(-2.9)
A 		69.8
(-0.7)
A 		53.1
(-3)
A 		88
(1.9)
A 		96.1
(3)
A 		43
C 70.5
(-1.6)
A 		76.2
(-0.9)
A 		86.2
(0.5)
A 		60.2
(-3)
A 		66.1
(-2.2)
A 		105
(3)
A 		45
avr 68.7
(-1.7) 		59
(-3) 		68.6
(-1.7) 		66.2
(-2) 		78.7
(-0.3) 		103
(3) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 32.2
(3)
A 		24.8
(1)
A 		21.8
(0.2)
A 		10.3
(-3)
A 		22
B 24.9
(0.7)
A 		34.6
(3)
A 		13.1
(-2.1)
A 		9.5
(-3)
A 		25
C 28
(3)
A 		19.6
(-0.6)
A 		14
(-3)
A 		18.7
(-1)
A 		14
avr 28.4
(3) 		26.3
(2.2) 		16.3
(-1.7) 		12.8
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 10.1
(-3)
A 		16.7
(-0.6)
A 		10.9
(-2.7)
A 		21.7
(1.3)
A 		24.7
(2.4)
A 		26.3
(3)
A 		16
B 28.2
(0.9)
A 		17.9
(-1.9)
A 		17
(-2.2)
A 		14.1
(-3)
A 		35.8
(3)
A 		35.8
(3)
A 		22
C 26.1
(0.6)
A 		23.2
(-0.1)
A 		21.9
(-0.5)
A 		12.1
(-3)
A 		21.4
(-0.6)
A 		35.2
(3)
A 		23
avr 21.5
(-1) 		19.3
(-1.8) 		16.6
(-2.8) 		16
(-3) 		27.3
(1.1) 		32.4
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190477_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7176
Sequence Type Exemplar sequence
Representative Public ID T07C4.2 NCBI
Target Description T07C4.2 /REP_DB=WormBase Gene ID /WP=CE21157 /GEN=tbx-8 /TR=SW:Q22292 /GB=CAA82578.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Brachyury
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_066886(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066886 NCBI Caenorhabditis elegans T07C4.2 (Brachyury) mRNA, complete cds. 10/11 None
SNAP00000030158 ENSEMBL cdna:SNAP chromosome:CEL140:III:10347470:10349487:1 10/11 None
GENEFINDER00000030164 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10347470:10349487:1 10/11 None
T07C4.2.1 ENSEMBL cdna:known chromosome:CEL140:III:10347459:10349561:1 gene:T07C4.2 10/11 None
T07C4.2.2 ENSEMBL cdna:known chromosome:CEL140:III:10347461:10349626:1 gene:T07C4.2 10/11 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:10347465-10349723(+) 100.0 100.0
Public Domain and Genome References
Gene Title Brachyury
Gene Symbol tbx-8
Ensembl T07C4.2
Entrez Gene 176450 Entrez gene
SwissProt Q22292 EMBL-EBI
WormBase CE36891 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 CAA82578 Hypothetical protein T07C4.2 [Caenorhabditis elegans] ref|NP_499287.2| T07C4.2 [Caenorhabditis elegans] dbj|BAD14918.1| T-box transcription factor TBX-8 [Caenorhabditis elegans] sp|Q22292|TBX8_CAEEL T-box transcription factor tbx-8 1.0E-133
blast S41015 transcription factor tbx8 - Caenorhabditis elegans 1.0E-133
Protein Domains
Database ID Description E-Value
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:190477_AT
agtaatgtcaatctacgagtccccatcggagagcccattcagcgtcccacaaccatcgac
ccgtcttgtcacttctgttcgactcacttataccgaatttattgcagttacagcgtacca
gaacgacgcagtaatcaagctgaaaatcaagttcaacccatttgccaaaggattccgaga
gggaagccaatcagacagaaaacgaaattctccatccgccgacgactctacaacagatga
aagctcatctcaagtctcttctcctcagccaaaaaagtcacgaaccgtgtcagtatcacc
tccattgatgccacggatccttccaacaatgattccaccaccaccagccatcaatcccct
tttctacagtctcccctacttttcccatttggcagccaccgggaacttcccgcctgtacc
attccaattcccatttggacttccatgcttctccccaatgtcatttccaacacctccgcc
atctttgaaaaatgtcaagaaagaagagcaagaggatattgagcaggaaatcaatacaag
taggcaggcaggcaaaaatgctcttctgcgggcattcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTAATGTCAATCTACGAGTCCCCA 135 63 417 Antisense
ACTTCTGTTCGACTCACTTATACCG 445 103 487 Antisense
GCAGTTACAGCGTACCAGAACGACG 32 313 520 Antisense
AATCAAGTTCAACCCATTTGCCAAA 452 169 561 Antisense
AGAAAACGAAATTCTCCATCCGCCG 636 71 613 Antisense
CGCCGACGACTCTACAACAGATGAA 696 255 633 Antisense
TCTCTTCTCCTCAGCCAAAAAAGTC 152 611 671 Antisense
GTCACGAACCGTGTCAGTATCACCT 420 463 693 Antisense
TGTCAGTATCACCTCCATTGATGCC 662 557 704 Antisense
GGATCCTTCCAACAATGATTCCACC 621 511 731 Antisense
AAAATGCTCTTCTGCGGGCATTCAC 200 133 971 Antisense
Sequence Source Affymetrix Proprietary Database