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[189979_at] Homeobox

Description F31E8.3 /REP_DB=WormBase Gene ID /WP=CE01930 /GEN=tab-1 /TR=Q19937 /GB=AAA98021.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox
Cluster 6grp_total > 17      4grp_total > 20      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 103
1 2 3 4 range
A 83.4
(-0.4)
P 		77.6
(-0.8)
A 		48.6
(-3)
A 		127.5
(3)
P 		79
B 94.6
(0.1)
P 		84.7
(-0.5)
A 		41.1
(-3)
A 		144.3
(3)
P 		103
C 66.9
(-1.5)
P 		77.5
(-0.6)
A 		49.8
(-3)
A 		120
(3)
P 		70
avr 81.6
(-0.5) 		79.9
(-0.6) 		46.5
(-3) 		130.6
(3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 101.3
(3)
P 		53.1
(-1.5)
P 		47.4
(-2)
A 		53.8
(-1.4)
P 		36.9
(-3)
A 		72.8
(0.3)
A 		64
B 110.1
(3)
P 		55.8
(-1.1)
M 		74.8
(0.3)
P 		30.6
(-3)
A 		37
(-2.5)
A 		59.7
(-0.8)
P 		80
C 103.5
(3)
P 		69.6
(-0.3)
P 		52
(-2)
A 		84.7
(1.2)
A 		41.2
(-3)
A 		61
(-1.1)
A 		62
avr 105
(3) 		59.5
(-1.1) 		58.1
(-1.2) 		56.4
(-1.4) 		38.4
(-3) 		64.5
(-0.6) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 30.4
(3)
P 		16.9
(-1.6)
A 		12.7
(-3)
A 		18.7
(-1)
P 		18
B 30.2
(2.9)
P 		20.9
(0.2)
A 		9.5
(-3)
A 		30.7
(3)
P 		21
C 22.2
(2.9)
P 		22.3
(3)
A 		17.4
(-3)
A 		20.2
(0.4)
P 		5
avr 27.6
(3) 		20
(-0.2) 		13.2
(-3) 		23.2
(1.2) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 18.7
(2.9)
P 		18.9
(3)
P 		10.3
(-3)
A 		13.6
(-0.7)
P 		11.1
(-2.4)
A 		17.7
(2.2)
A 		9
B 38.3
(3)
P 		18.6
(-0.9)
M 		18.2
(-1)
P 		8.1
(-3)
A 		15
(-1.6)
A 		22.3
(-0.2)
P 		30
C 38.4
(3)
P 		21.2
(-1.1)
P 		13.2
(-3)
A 		17
(-2.1)
A 		13.3
(-3)
A 		20.4
(-1.3)
A 		25
avr 31.8
(3) 		19.6
(-0.9) 		13.9
(-2.7) 		12.9
(-3) 		13.1
(-2.9) 		20.1
(-0.7) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189979_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4713
Sequence Type Exemplar sequence
Representative Public ID F31E8.3 NCBI
Target Description F31E8.3 /REP_DB=WormBase Gene ID /WP=CE01930 /GEN=tab-1 /TR=Q19937 /GB=AAA98021.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox
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_062991(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062991 NCBI Caenorhabditis elegans F31E8.3 (Homeobox) mRNA, complete cds. 11/11 None
SNAP00000019075 ENSEMBL cdna:SNAP chromosome:CEL140:II:6803688:6804691:1 11/11 None
GENEFINDER00000019085 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6803688:6804691:1 11/11 None
F31E8.3 ENSEMBL cdna:known chromosome:CEL140:II:6803688:6804691:1 gene:F31E8.3 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:6803682-6804686(+) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox
Gene Symbol tab-1
Ensembl F31E8.3
Entrez Gene 185156 Entrez gene
SwissProt Q19937 EMBL-EBI
WormBase CE01930 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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_495392 F31E8.3 [Caenorhabditis elegans] gb|AAA98021.1| Touch abnormal protein 1 [Caenorhabditis elegans] 2.0E-86
blast NP_495392 F31E8.3 [Caenorhabditis elegans] gb|AAA98021.1| Touch abnormal protein 1 [Caenorhabditis elegans] 5.0E-82
blast CAE65973 Hypothetical protein CBG11158 [Caenorhabditis briggsae] 3.0E-76
blast CAE65973 Hypothetical protein CBG11158 [Caenorhabditis briggsae] 8.0E-72
blast EAA15156 ENSANGP00000010640 [Anopheles gambiae str. PEST] ref|XP_320094.2| ENSANGP00000010640 [Anopheles gambiae str. PEST] 4.0E-22
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.99999990479657E-21
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999968265523E-22
Pfam IPR001356 EMBL-EBI Homeobox 2.4E-31
Pfam IPR001356 EMBL-EBI Homeobox 2.4E-31
Sequence
Target Sequence 
>C. ELEGANS:189979_AT
tgatcttcttcgtgggcattcaaacgaaattcaaagaattctgaagcttgatcaaacatc
gcccactccccaatcaagttcagatgagggatcagaaaaatcatcgatatccgtaatgtc
agttccattgacaaatgaattaactcccacaatcactcctgctctttctgatcagctttg
gcttgcagcagcagcgtttccaatagaacatagtctcttgttggctcaacgaaatggagt
ttttcctggattctggtcaacagctgatcagattcgattgtcaaatgcaactaaagcgta
tagaagattgaggttggaatgttcgcgaagaaaagcaagaacagtgttcagtgatcagca
act

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCTTCTTCGTGGGCATTCAAAC 84 565 45 Antisense
TGAAGCTTGATCAAACATCGCCCAC 334 575 86 Antisense
CCACTCCCCAATCAAGTTCAGATGA 224 275 107 Antisense
ATCGATATCCGTAATGTCAGTTCCA 51 37 147 Antisense
AATGAATTAACTCCCACAATCACTC 182 165 178 Antisense
CCTGCTCTTTCTGATCAGCTTTGGC 187 267 202 Antisense
TCAGCTTTGGCTTGCAGCAGCAGCG 450 625 216 Antisense
TGCAGCAGCAGCGTTTCCAATAGAA 131 579 228 Antisense
ACATAGTCTCTTGTTGGCTCAACGA 101 105 252 Antisense
GAGTTTTTCCTGGATTCTGGTCAAC 303 399 281 Antisense
GAACAGTGTTCAGTGATCAGCAACT 343 351 383 Antisense
Sequence Source Affymetrix Proprietary Database