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[189631_at] brachyury (weak)

Description T26C11.1 /REP_DB=WormBase Gene ID /WP=CE05020 /TR=Q22813 /GB=AAC48210.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=brachyury (weak)
Cluster 6grp_total > 50      4grp_total > 35      6grp_cgc > 20      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 47
(-1.1)
A 		75.6
(3)
A 		33.4
(-3)
A 		63.1
(1.2)
A 		42
B 42.7
(-1.8)
A 		82.2
(3)
A 		40.2
(-2.1)
A 		32.5
(-3)
A 		50
C 31
(-2)
A 		57
(1.3)
A 		23
(-3)
A 		70.1
(3)
A 		47
avr 40.2
(-1.8) 		71.6
(3) 		32.2
(-3) 		55.2
(0.5) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 102.4
(3)
P 		55.9
(-0.7)
A 		60.9
(-0.3)
P 		27
(-3)
A 		61.8
(-0.2)
M 		71.9
(0.6)
M 		75
B 58.5
(0.8)
A 		53.2
(0)
P 		72.9
(3)
A 		68.5
(2.3)
A 		33.5
(-3)
A 		40
(-2)
A 		39
C 35.4
(-3)
A 		56
(-0.9)
A 		48
(-1.7)
A 		93.7
(3)
A 		38.5
(-2.7)
A 		55.8
(-0.9)
A 		58
avr 65.4
(3) 		55
(-0) 		60.6
(1.6) 		63.1
(2.3) 		44.6
(-3) 		55.9
(0.3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 17.1
(3)
A 		16.4
(2.5)
A 		8.7
(-3)
A 		9.2
(-2.6)
A 		8
B 13.6
(0)
A 		20.3
(3)
A 		9.3
(-1.9)
A 		6.9
(-3)
A 		13
C 10.3
(-1.4)
A 		16.4
(3)
A 		8
(-3)
A 		11.8
(-0.3)
A 		8
avr 13.7
(0.3) 		17.7
(3) 		8.7
(-3) 		9.3
(-2.6) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 18.9
(2.5)
P 		19.9
(3)
A 		13.3
(-0)
P 		6.8
(-3)
A 		18.7
(2.5)
M 		17.5
(1.9)
M 		13
B 20.4
(3)
A 		17.7
(0.6)
P 		17.7
(0.6)
A 		18.2
(1.1)
A 		13.6
(-3)
A 		14.9
(-1.9)
A 		7
C 13.1
(-2.2)
A 		17.1
(1.5)
A 		12.2
(-3)
A 		18.8
(3)
A 		12.5
(-2.7)
A 		18.7
(2.9)
A 		7
avr 17.5
(1.9) 		18.2
(3) 		14.4
(-3) 		14.6
(-2.7) 		14.9
(-2.2) 		17
(1.1) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189631_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18496
Sequence Type Exemplar sequence
Representative Public ID T26C11.1 NCBI
Target Description T26C11.1 /REP_DB=WormBase Gene ID /WP=CE05020 /TR=Q22813 /GB=AAC48210.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=brachyury (weak)
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_075942(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075942 NCBI Caenorhabditis elegans T BoX family member (tbx-41) (tbx-41) mRNA, complete cds. 11/11 None
GENEFINDER00000040407 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1865165:1866458:1 10/11 None
SNAP00000040399 ENSEMBL cdna:SNAP chromosome:CEL140:X:1865367:1866458:1 11/11 None
T26C11.1 ENSEMBL cdna:known chromosome:CEL140:X:1865240:1866458:1 gene:T26C11.1 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
chrX:1865239-1866458(+) 100.0 100.0
Public Domain and Genome References
Gene Title brachyury (weak)
Gene Symbol tbx-41
Ensembl T26C11.1
Entrez Gene 188917 Entrez gene
SwissProt Q22813 EMBL-EBI
WormBase CE05020 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 NP_508343 T BoX family member (tbx-41) [Caenorhabditis elegans] gb|AAC48210.1| T box family protein 41 [Caenorhabditis elegans] 1.0E-128
blast NP_508343 T BoX family member (tbx-41) [Caenorhabditis elegans] gb|AAC48210.1| T box family protein 41 [Caenorhabditis elegans] 1.0E-106
blast NP_508343 T BoX family member (tbx-41) [Caenorhabditis elegans] gb|AAC48210.1| T box family protein 41 [Caenorhabditis elegans] 1.0E-94
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 5.0E-19
blast S41015 transcription factor tbx8 - Caenorhabditis elegans 5.0E-19
Sequence
Target Sequence 
>C. ELEGANS:189631_AT
ggagcccaagttcatttgtcatccggctggaatcaagatgggagcattgtggacgtccag
aacaatttcatttgaggattttttcatcaccaccaacccacaacctaccgacaattccat
gatccatctgccgccacactgtaagttcacaccaattctagatgtgtatgaggtggtgtt
ggatcatatgcagcaacctgcaacaatgcatcgcgtcagttcctgccgacttccgtacac
ttttatgacagtcacgatgtacaagaatcgagaagcccgtgtcttgaaattggggatgaa
ccctcacgctcgacattttctgaagaataataccaataaaaaccatctggatacagcttc
cttgattcctccaattccatctgtccaaccattgcctctttttcctctcccacaaaactc
gatgtcttatactttctcatacgacacgtacccgtcaaacatccatgttgccccgattca
gctcccgttcccattccctgcagtgctctcaactctagcttcatcccttcaactttgtcg
ggacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCCCAAGTTCATTTGTCATCCG 669 521 126 Antisense
ACCTACCGACAATTCCATGATCCAT 682 87 228 Antisense
TGCAACAATGCATCGCGTCAGTTCC 431 577 324 Antisense
CCGACTTCCGTACACTTTTATGACA 553 261 351 Antisense
GAATCGAGAAGCCCGTGTCTTGAAA 569 327 390 Antisense
AAATTGGGGATGAACCCTCACGCTC 177 115 412 Antisense
CCTCACGCTCGACATTTTCTGAAGA 49 269 427 Antisense
CTGGATACAGCTTCCTTGATTCCTC 415 241 472 Antisense
AAACTCGATGTCTTATACTTTCTCA 31 127 540 Antisense
CATACGACACGTACCCGTCAAACAT 524 209 563 Antisense
TCATCCCTTCAACTTTGTCGGGACG 239 619 646 Antisense
Sequence Source Affymetrix Proprietary Database