[Home] | [Total List]

[189786_at] paired box protein

Description F48B9.5 /REP_DB=WormBase Gene ID /WP=CE04613 /TR=Q20551 /GB=AAA81747.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=paired box protein
Cluster 6grp_total > 93      4grp_total > 42      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 65.2
(-3)
A 		70.5
(-2.3)
A 		107.7
(3)
A 		90.6
(0.6)
A 		43
B 37.1
(-1.3)
A 		79.2
(3)
A 		51.9
(0.2)
A 		20.6
(-3)
A 		59
C 56.4
(-1.1)
A 		78.5
(3)
A 		45.9
(-3)
A 		68.5
(1.2)
A 		33
avr 52.9
(-3) 		76.1
(3) 		68.5
(1) 		59.9
(-1.2) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 277
1 2 3 4 5 6 range
A 87.4
(-2.1)
A 		99.5
(-1.9)
A 		130.1
(-1.2)
A 		122.1
(-1.4)
A 		314.8
(3)
P 		49.4
(-3)
A 		265
B 55.3
(-3)
A 		56
(-3)
A 		72.3
(-2.5)
A 		109.8
(-1.5)
M 		275
(3)
P 		54.5
(-3)
A 		221
C 114.3
(1)
A 		79.9
(-0.8)
A 		38
(-3)
A 		120.3
(1.3)
A 		153.8
(3)
P 		68.7
(-1.4)
A 		116
avr 85.7
(-2.1) 		78.5
(-2.3) 		80.1
(-2.3) 		117.4
(-1.1) 		247.9
(3) 		57.5
(-3) 		190
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 23.8
(1.3)
A 		15.3
(-2.2)
A 		28.1
(3)
A 		13.3
(-3)
A 		15
B 11.8
(-0.1)
A 		19.5
(3)
A 		12
(0)
A 		4.4
(-3)
A 		15
C 18.7
(0.9)
A 		22.6
(3)
A 		16
(-0.6)
A 		11.5
(-3)
A 		11
avr 18.1
(2.4) 		19.1
(3) 		18.7
(2.7) 		9.7
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 16.1
(-2.7)
A 		35.4
(-1.3)
A 		28.3
(-1.8)
A 		31
(-1.6)
A 		95
(3)
P 		12
(-3)
A 		83
B 19.2
(-2.9)
A 		18.6
(-2.9)
A 		17.6
(-3)
A 		29.1
(-2.3)
M 		111.7
(3)
P 		20.3
(-2.8)
A 		94
C 42.4
(1.9)
A 		24.4
(-0.8)
A 		9.7
(-3)
A 		24.2
(-0.8)
A 		49.8
(3)
P 		23
(-1)
A 		40
avr 25.9
(-2.3) 		26.1
(-2.3) 		18.5
(-3) 		28.1
(-2.1) 		85.5
(3) 		18.4
(-3) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189786_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18417
Sequence Type Exemplar sequence
Representative Public ID F48B9.5 NCBI
Target Description F48B9.5 /REP_DB=WormBase Gene ID /WP=CE04613 /TR=Q20551 /GB=AAA81747.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=paired box protein
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_075995(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075995 NCBI Caenorhabditis elegans F48B9.5 (F48B9.5) mRNA, complete cds. 11/11 None
SNAP00000005465 ENSEMBL cdna:SNAP chromosome:CEL140:X:2147608:2149246:-1 11/11 None
GENEFINDER00000005475 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2147608:2149246:-1 11/11 None
F48B9.5 ENSEMBL cdna:known chromosome:CEL140:X:2147608:2149246:-1 gene:F48B9.5 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:2147707-2149246(-) 100.0 100.0
Public Domain and Genome References
Gene Title paired box protein
Ensembl F48B9.5
Entrez Gene 185967 Entrez gene
SwissProt Q20551 EMBL-EBI
WormBase CE35546 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7275 development inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81747 Hypothetical protein F48B9.5 [Caenorhabditis elegans] ref|NP_508396.3| F48B9.5 [Caenorhabditis elegans] 1.0E-115
blast CAE68346 Hypothetical protein CBG14076 [Caenorhabditis briggsae] 1.0E-83
blast BAA36346.1 Pax-2/5/8 [Ephydatia fluviatilis] 4.0E-22
Protein Domains
Database ID Description E-Value
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 2.99999996001683E-24
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 5.1E-28
Sequence
Target Sequence 
>C. ELEGANS:189786_AT
gacacatcgactccagaatcgctggaaagagattttatggcttggttaaacagcgatcca
acaaatactccaatccgaaaatccgtgtaccatagttctgactctattgcccctgcactg
ataagccagtttacagatgcatttgaagctggtatgtacaatccctattactacccagac
acatccgacagtggctcgccttcctctctctcttgttcgtcactagattacgatgtacca
cccccaccacaatacgagaaggatgttgcacgaagttcaggaagaaatcaattgggtagg
acgtacagccccggattgccgttgtcaatgtgtgaacgcgaggagattgtgaagcttttt
cagggtggttggaaaatttgcgacatttcaaaacggctctgtgtcacgcacagttgtgtg
agcaaaattcttaatagataccgccaaactggatcagtaaagccaaaggatgcaaaagaa
ggtcgaacggaatctcctttagttttagctgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACACATCGACTCCAGAATCGCTGG 170 367 31 Antisense
AACAGCGATCCAACAAATACTCCAA 340 137 79 Antisense
ATCCGTGTACCATAGTTCTGACTCT 31 37 111 Antisense
TGCCCCTGCACTGATAAGCCAGTTT 273 583 138 Antisense
TGTACAATCCCTATTACTACCCAGA 273 557 185 Antisense
TACCCAGACACATCCGACAGTGGCT 575 647 202 Antisense
TCTCTCTTGTTCGTCACTAGATTAC 139 613 237 Antisense
CACCCCCACCACAATACGAGAAGGA 431 201 269 Antisense
CCCGGATTGCCGTTGTCAATGTGTG 568 259 340 Antisense
TTCAAAACGGCTCTGTGTCACGCAC 81 685 417 Antisense
GGAATCTCCTTTAGTTTTAGCTGTT 400 533 519 Antisense
Sequence Source Affymetrix Proprietary Database