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[192418_at] DNA-binding transcription factor

Description K07C11.1 /REP_DB=WormBase Gene ID /WP=CE07344 /TR=Q21272 /GB=AAA96181.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=DNA-binding transcription factor
Cluster 6grp_total > 54      4grp_total > 03      6grp_cgc > 91      6grp_cgc_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 43.8
(-1.9)
A 		14.2
(-3)
A 		48.7
(-1.7)
A 		172.6
(3)
A 		158
B 23
(-1.2)
A 		58.4
(3)
A 		9.4
(-2.9)
A 		8.2
(-3)
A 		50
C 32.6
(-2)
A 		5.6
(-2.9)
A 		3.4
(-3)
A 		185.8
(3)
A 		182
avr 33.1
(-2.3) 		26.1
(-2.7) 		20.5
(-3) 		122.2
(3) 		102

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 11.3
(-2.3)
A 		16.1
(-1.9)
A 		71.7
(3)
A 		45.9
(0.7)
A 		40.2
(0.2)
A 		3.3
(-3)
A 		68
B 36.2
(1.7)
A 		36.3
(1.7)
A 		23.8
(-0.8)
A 		12.9
(-3)
A 		42.9
(3)
A 		34.4
(1.3)
A 		30
C 17
(-1.4)
A 		39.6
(1.7)
A 		33.3
(0.9)
A 		20.1
(-0.9)
A 		5.2
(-3)
A 		48.7
(3)
A 		44
avr 21.5
(-3) 		30.7
(-0.4) 		42.9
(3) 		26.3
(-1.7) 		29.4
(-0.8) 		28.8
(-1) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 15.9
(0.5)
A 		3.1
(-3)
A 		12.7
(-0.4)
A 		25.3
(3)
A 		22
B 7.3
(-0.4)
A 		14.4
(3)
A 		2.2
(-2.8)
A 		1.8
(-3)
A 		13
C 10.8
(-1.1)
A 		1.6
(-2.9)
A 		1.2
(-3)
A 		31.3
(3)
A 		30
avr 11.3
(-0.5) 		6.4
(-2.6) 		5.4
(-3) 		19.5
(3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 2.1
(-2.5)
A 		5.7
(-1)
A 		15.6
(3)
A 		11.6
(1.4)
A 		12.1
(1.6)
A 		0.8
(-3)
A 		15
B 12.6
(0.9)
A 		12.1
(0.7)
A 		5.8
(-2)
A 		3.4
(-3)
A 		17.4
(3)
A 		12.8
(1)
A 		14
C 6.3
(-1.1)
A 		12.1
(1.3)
A 		8.5
(-0.2)
A 		4
(-2.1)
A 		1.7
(-3)
A 		16.3
(3)
A 		15
avr 7
(-2) 		10
(2.4) 		10
(2.4) 		6.3
(-3) 		10.4
(3) 		10
(2.4) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192418_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11718
Sequence Type Exemplar sequence
Representative Public ID K07C11.1 NCBI
Target Description K07C11.1 /REP_DB=WormBase Gene ID /WP=CE07344 /TR=Q21272 /GB=AAA96181.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=DNA-binding transcription factor
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_072719(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072719 NCBI Caenorhabditis elegans PAX (Paired box) transcription factor family member (pax-1) (pax-1) mRNA, complete cds. 11/11 None
SNAP00000021030 ENSEMBL cdna:SNAP chromosome:CEL140:V:8227556:8228628:1 11/11 None
GENEFINDER00000021034 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8227556:8228628:1 11/11 None
K07C11.1 ENSEMBL cdna:known chromosome:CEL140:V:8227556:8228628:1 gene:K07C11.1 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
chrV:8227556-8228629(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA-binding transcription factor
Gene Symbol pax-1
Ensembl K07C11.1
Entrez Gene 187105 Entrez gene
SwissProt Q21272 EMBL-EBI
WormBase CE07344 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 AAA96181 Pax (paired box) transcription factor protein 1 [Caenorhabditis elegans] ref|NP_505120.1| PAX (Paired box) transcription factor family member (pax-1) [Caenorhabditis elegans] 1.0E-125
blast CAE56941 Hypothetical protein CBG24786 [Caenorhabditis briggsae] 2.0E-84
blast CAA34860 paired box pox meso protein [Drosophila melanogaster] 7.0E-51
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 5.00000009770741E-26
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 2.00000003908296E-24
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 8.1E-73
Sequence
Target Sequence 
>C. ELEGANS:192418_AT
tctcctgccaaaactgccgaagttaatcaacttggtggagttttcgtaaatggaagacca
cttccatttgagatgcgttgtaaaatagttgagctctcgagacaaggaacacgaccgtgt
gacatctctcgtcaactaaaaatcagtcatggatgcgtttcgaaaatattgactcggttc
tcagaaaatggaacaataatgcctggaacaattggaggatctagaccgagagttactacg
cctaaagttgttgaatatattcgaagtttgaagcgctctgatccaggaatttttgcatgg
gagattcgagatcgacttatttctgccgacatttgcgatagagctaaccttccatcagtc
agtagtataagcagaattcttaggaataaaaacggaggaaatagttcaagctcatcaagc
tctcaacttcgatacatcagagatcagctcgccgagcagcagcagcaacaacatctacaa
caacatcagtatatggaatataacaataatgaattaaatcaaatttctggaaatcttgat
tatcaagtttcatcttcaaatacaccgccatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCTGCCAAAACTGCCGAAGTTA 95 609 184 Antisense
AGACCACTTCCATTTGAGATGCGTT 231 71 238 Antisense
AACACGACCGTGTGACATCTCTCGT 663 135 291 Antisense
AAATCAGTCATGGATGCGTTTCGAA 235 117 323 Antisense
CTAGACCGAGAGTTACTACGCCTAA 25 225 404 Antisense
CGAAGTTTGAAGCGCTCTGATCCAG 247 253 445 Antisense
GAGATCGACTTATTTCTGCCGACAT 233 397 491 Antisense
TCTGCCGACATTTGCGATAGAGCTA 680 607 505 Antisense
GATAGAGCTAACCTTCCATCAGTCA 251 425 520 Antisense
GCTCATCAAGCTCTCAACTTCGATA 482 301 593 Antisense
TTTCATCTTCAAATACACCGCCATC 193 673 731 Antisense
Sequence Source Affymetrix Proprietary Database