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[192729_at] transcription regulator

Description T27A1.6 /REP_DB=WormBase Gene ID /WP=CE24016 /GEN=tbx-12 /TR=O17276 /GB=AAF02176.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=transcription regulator
Cluster 6grp_total > 12      4grp_total > 43      6grp_cgc > 62      6grp_cgc_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 111
(-0.5)
A 		206.2
(3)
A 		41.8
(-3)
A 		69.2
(-2)
A 		164
B 105.3
(-0.6)
A 		159
(3)
A 		70.3
(-3)
A 		96.9
(-1.2)
A 		89
C 107.7
(-2.8)
A 		152.3
(3)
A 		112.9
(-2.1)
A 		106.1
(-3)
A 		46
avr 108
(-1) 		172.5
(3) 		75
(-3) 		90.7
(-2) 		98

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 14.7
(-2.8)
A 		182.5
(3)
M 		102
(0.2)
A 		108.1
(0.4)
A 		100.3
(0.2)
A 		7.8
(-3)
A 		175
B 112.7
(1.4)
A 		147
(3)
A 		96.5
(0.6)
A 		94.9
(0.5)
A 		80.2
(-0.2)
A 		20.8
(-3)
A 		126
C 109.8
(1.7)
A 		132.8
(3)
A 		85.2
(0.4)
A 		127.9
(2.7)
A 		56.8
(-1.2)
A 		24.1
(-3)
A 		109
avr 79.1
(-0.3) 		154.1
(3) 		94.6
(0.4) 		110.3
(1.1) 		79.1
(-0.3) 		17.6
(-3) 		137
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 40.4
(2.2)
A 		44.8
(3)
A 		10.9
(-2.9)
A 		10.1
(-3)
A 		35
B 33.6
(1.5)
A 		39.3
(3)
A 		16.3
(-3)
A 		20.6
(-1.9)
A 		23
C 35.7
(1.1)
A 		43.8
(3)
A 		39.4
(2)
A 		17.9
(-3)
A 		26
avr 36.6
(1.6) 		42.6
(3) 		22.2
(-1.6) 		16.2
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 2.7
(-2.9)
A 		64.9
(3)
M 		22.2
(-1.1)
A 		27.4
(-0.6)
A 		30.3
(-0.3)
A 		1.9
(-3)
A 		63
B 39.2
(1.6)
A 		48.9
(3)
A 		23.4
(-0.7)
A 		25.1
(-0.5)
A 		32.6
(0.6)
A 		7.8
(-3)
A 		41
C 40.7
(3)
A 		40.5
(3)
A 		21.7
(-0.5)
A 		25.7
(0.2)
A 		18.4
(-1.1)
A 		8.1
(-3)
A 		33
avr 27.5
(-0.2) 		51.4
(3) 		22.4
(-0.8) 		26.1
(-0.3) 		27.1
(-0.2) 		5.9
(-3) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192729_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4985
Sequence Type Exemplar sequence
Representative Public ID T27A1.6 NCBI
Target Description T27A1.6 /REP_DB=WormBase Gene ID /WP=CE24016 /GEN=tbx-12 /TR=O17276 /GB=AAF02176.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=transcription regulator
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_061349(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061349 NCBI Caenorhabditis elegans Male ABnormal family member (mab-9) (mab-9) mRNA, complete cds. 11/11 None
SNAP00000021276 ENSEMBL cdna:SNAP chromosome:CEL140:II:513789:520595:1 9/11 None
GENEFINDER00000021286 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:516155:525853:1 11/11 None
T27A1.6 ENSEMBL cdna:known chromosome:CEL140:II:516037:521621:1 gene:T27A1.6 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
chrII:516154-520591(+) 99.04 99.04
Public Domain and Genome References
Gene Title transcription regulator
Gene Symbol mab-9
Ensembl T27A1.6
Entrez Gene 173441 Entrez gene
SwissProt P90971 EMBL-EBI
WormBase CE24016 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.5723.1.S1_AT similar to T-box 20 isoform a cfa
CHICKEN:GGA.4201.1.S1_AT T-box 20 gga
CHICKEN:GGA.4201.1.S2_AT T-box 20 gga
MOUSE430_2:1425158_AT T-box 20 mm
MOE430A:1425158_AT T-box 20 mm
MOUSE430A_2:1425158_AT T-box 20 mm
MOUSE430_2:1422219_A_AT T-box 20 mm
MOE430A:1422219_A_AT T-box 20 mm
MOUSE430A_2:1422219_A_AT T-box 20 mm
MG-U74CV2:130790_S_AT T-box 20 mm
MG-U74CV2:133255_AT T-box 20 mm
MOE430B:1453351_AT T-box 20 mm
MOUSE430_2:1453351_AT T-box 20 mm
MU19KSUBB:TC32651_AT T-box transcription factor TBX20 (Tbx20) mm
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 CAB65731 T-box DNA binding protein [Caenorhabditis elegans] ref|NP_493750.1| Male ABnormal family member (mab-9) [Caenorhabditis elegans] sp|P90971|TBX12_CAEEL T-box protein 12 (Male abnormal-9 protein) gb|AAF02176.1| Male abnormal protein 9 [Caenorhabditis elegans] 0.0
blast AAB37243 T-BOX 12 [Caenorhabditis elegans] 0.0
blast A88023 protein T27A1.6 [imported] - Caenorhabditis elegans 0.0
blast NP_493751 T27A1.5 [Caenorhabditis elegans] gb|AAB71045.1| Hypothetical protein T27A1.5 [Caenorhabditis elegans] 0.0
blast CAE62853 Hypothetical protein CBG07032 [Caenorhabditis briggsae] 0.0
blast CAB65731 T-box DNA binding protein [Caenorhabditis elegans] ref|NP_493750.1| Male ABnormal family member (mab-9) [Caenorhabditis elegans] sp|P90971|TBX12_CAEEL T-box protein 12 (Male abnormal-9 protein) gb|AAF02176.1| Male abnormal protein 9 [Caenorhabditis elegans] 1.0E-154
Protein Domains
Database ID Description E-Value
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 1.0E-126
Pfam IPR001699 EMBL-EBI Transcription factor, T-box 1.0E-126
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021286 10 417-439,480-499,514-533,540-562,582-604,617-639,659-681,702-720,724-746,766-788
Sequence
Target Sequence 
>C. ELEGANS:192729_AT
acaaatcagcttggctcacagccggtaaagcggagcctgtgccaaaaaatcgatattacc
ttcacccggactccccatttaccggtgatcaactgctgaagcacgtgatttcgtttgaaa
agactaaattgacaaataacgaggtggataagacgggtcatctaatcctaaactcaatgc
acaaataccagccacgtattcacattgtccaacgccagaaagccaaccccttggacccca
acaaagtagtgatgagtgaagaaaaacactgcacctacacatttccagaaacacaattta
tggcagtgacggcttatcaaaatcagttgataacaaagctgaaaatcgagaaaaaccctt
ttgcaaaggggtttagggatcctacaggaaggtcgccggatgaaatggaaaggtccccag
gcgacatgatgctctccaacttctaccactcctctgctctgcagcaggcaatgtttcagc
agtgcctgagcaagactcttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAAATCAGCTTGGCTCACAGCCGG 645 105 437 Antisense
GCCGGTAAAGCGGAGCCTGTGCCAA 554 281 457 Antisense
CCCCATTTACCGGTGATCAACTGCT 624 261 509 Antisense
GACGGGTCATCTAATCCTAAACTCA 480 375 588 Antisense
TACCAGCCACGTATTCACATTGTCC 93 651 622 Antisense
CACATTGTCCAACGCCAGAAAGCCA 114 197 637 Antisense
CACTGCACCTACACATTTCCAGAAA 221 199 703 Antisense
GGGATCCTACAGGAAGGTCGCCGGA 650 495 812 Antisense
AAATGGAAAGGTCCCCAGGCGACAT 157 115 839 Antisense
CTCCTCTGCTCTGCAGCAGGCAATG 281 235 885 Antisense
AGCAGTGCCTGAGCAAGACTCTTCA 102 79 914 Antisense
Sequence Source Affymetrix Proprietary Database