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[190371_at] homeotic protein PBX2

Description F22A3.5 /REP_DB=WormBase Gene ID /WP=CE04441 /TR=Q19697 /GB=AAA83196.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeotic protein PBX2
Cluster 6grp_total > 93      4grp_total > 55      6grp_cgc > 89      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 2.6
(-2.5)
A 		2.2
(-3)
A 		6.6
(3)
A 		5.8
(1.9)
A 		4
B 4.9
(-1.3)
A 		7.2
(3)
A 		4
(-3)
A 		4.2
(-2.6)
A 		3
C 33.7
(3)
A 		4.3
(-2.9)
A 		11.8
(-1.4)
A 		4
(-3)
A 		30
avr 13.7
(3) 		4.6
(-3) 		7.5
(-1.1) 		4.7
(-2.9) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 4.8
(-2.9)
A 		4.5
(-3)
A 		22.2
(3)
A 		6.4
(-2.4)
A 		5.8
(-2.6)
A 		15.8
(0.8)
A 		18
B 4
(-2.9)
A 		48.3
(3)
A 		7.2
(-2.5)
A 		3.5
(-3)
A 		32.1
(0.8)
A 		24.9
(-0.1)
A 		45
C 3.3
(-3)
A 		3
(-3)
A 		19.8
(-1)
A 		30.1
(0.2)
A 		53.4
(3)
A 		16.8
(-1.4)
A 		50
avr 4
(-3) 		18.6
(0.3) 		16.4
(-0.2) 		13.3
(-0.9) 		30.4
(3) 		19.2
(0.5) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 0.9
(-1)
A 		0.5
(-3)
A 		1.7
(3)
A 		0.8
(-1.5)
A 		1
B 1.6
(1.7)
A 		1.8
(3)
A 		0.9
(-3)
A 		0.9
(-3)
A 		1
C 11.2
(3)
A 		1.3
(-2.7)
A 		4.1
(-1.1)
A 		0.7
(-3)
A 		11
avr 4.6
(3) 		1.2
(-2.4) 		2.2
(-0.8) 		0.8
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 0.9
(-3)
A 		1.6
(-1.9)
A 		4.8
(3)
A 		1.6
(-1.9)
A 		1.7
(-1.8)
A 		3.8
(1.5)
A 		4
B 1.4
(-2.8)
A 		16.1
(3)
A 		1.7
(-2.7)
A 		0.9
(-3)
A 		13
(1.8)
A 		9.3
(0.3)
A 		15
C 1.2
(-2.9)
A 		0.9
(-3)
A 		5
(-1.5)
A 		6.1
(-1.1)
A 		17.3
(3)
A 		5.6
(-1.3)
A 		16
avr 1.2
(-3) 		6.2
(0.2) 		3.8
(-1.4) 		2.9
(-1.9) 		10.7
(3) 		6.2
(0.2) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190371_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16599
Sequence Type Exemplar sequence
Representative Public ID F22A3.5 NCBI
Target Description F22A3.5 /REP_DB=WormBase Gene ID /WP=CE04441 /TR=Q19697 /GB=AAA83196.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeotic protein PBX2
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_076700(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076700 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-60) (ceh-60) mRNA, complete cds. 9/11 None
GENEFINDER00000004718 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6522738:6529347:-1 9/11 None
F22A3.5 ENSEMBL cdna:known chromosome:CEL140:X:6526565:6527618:-1 gene:F22A3.5 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:6526564-6527618(-) 96.84 100.0
Public Domain and Genome References
Gene Title homeotic protein PBX2
Gene Symbol ceh-60
Ensembl F22A3.5
Entrez Gene 184803 Entrez gene
WormBase CE38506 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_509101 C.Elegans Homeobox family member (ceh-60) [Caenorhabditis elegans] gb|AAX88831.1| C.elegans homeobox protein 60 [Caenorhabditis elegans] 1.0E-144
blast NP_509101 C.Elegans Homeobox family member (ceh-60) [Caenorhabditis elegans] gb|AAX88831.1| C.elegans homeobox protein 60 [Caenorhabditis elegans] 1.0E-135
blast CAE65749 Hypothetical protein CBG10835 [Caenorhabditis briggsae] 1.0E-129
blast CAE65749 Hypothetical protein CBG10835 [Caenorhabditis briggsae] 1.0E-103
blast T34237 hypothetical protein F22A3.5 - Caenorhabditis elegans 3.0E-61
blast NP_509101 C.Elegans Homeobox family member (ceh-60) [Caenorhabditis elegans] gb|AAX88831.1| C.elegans homeobox protein 60 [Caenorhabditis elegans] 1.0E-43
blast T34237 hypothetical protein F22A3.5 - Caenorhabditis elegans 6.0E-43
blast T34237 hypothetical protein F22A3.5 - Caenorhabditis elegans 8.0E-43
blast CAE65749 Hypothetical protein CBG10835 [Caenorhabditis briggsae] 2.0E-36
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.99999981000673E-15
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999988726602E-27
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.00000000317108E-28
Pfam IPR001356 EMBL-EBI Homeobox 0.0022
Pfam IPR001356 EMBL-EBI Homeobox 4.1E-9
Pfam IPR001356 EMBL-EBI Homeobox 4.1E-9
Sequence
Target Sequence 
>C. ELEGANS:190371_AT
tttcaggatttctctaacattcggcaaagcatttccaaaaggttcgagcattcgaaaaat
aacattcgcggggaggcagcaactaaaattctagttctccggagggagatcgagcagcag
ggacgcaagcgccggaactttgacaaaaacacgacggacattttgcaaaactggttccac
gatcatcgtcaaaatccttacccgtccgaccaggaaaaggcggaattagcaaaacagtgt
aatatcaaaatttcacagcaaaatagacctctaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCAGGATTTCTCTAACATTCGGC 330 1 16 Antisense
TAACATTCGGCAAAGCATTTCCAAA 643 639 30 Antisense
AGCATTTCCAAAAGGTTCGAGCATT 500 77 43 Antisense
AACATTCGCGGGGAGGCAGCAACTA 298 137 76 Antisense
TAAAATTCTAGTTCTCCGGAGGGAG 57 639 99 Antisense
TCCGGAGGGAGATCGAGCAGCAGGG 639 593 113 Antisense
AGATCGAGCAGCAGGGACGCAAGCG 339 65 122 Antisense
ACACGACGGACATTTTGCAAAACTG 115 109 164 Antisense
AAAACTGGTTCCACGATCATCGTCA 454 131 182 Antisense
GATCATCGTCAAAATCCTTACCCGT 626 419 196 Antisense
TTTCACAGCAAAATAGACCTCTAAA 169 673 266 Antisense
Sequence Source Affymetrix Proprietary Database