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[189424_at] Homeobox domain

Description C18B12.3 /REP_DB=WormBase Gene ID /WP=CE08308 /TR=Q93246 /GB=CAA20928.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Homeobox domain
Cluster 6grp_high1_10_10 > 0      4grp_high_8_8 > 20      6grp_total > 03      4grp_total > 28      6grp_cgc > 50      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 138.5
(3)
P 		83
(-3)
P 		109.5
(-0.1)
P 		99.5
(-1.2)
A 		56
B 111.8
(-1.7)
P 		155.7
(3)
P 		99.5
(-3)
A 		119.2
(-0.9)
P 		56
C 114.6
(-0.3)
P 		129.3
(0.5)
P 		66.4
(-3)
P 		174.9
(3)
P 		109
avr 121.6
(1.5) 		122.7
(1.7) 		91.8
(-3) 		131.2
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 128
1 2 3 4 5 6 range
A 164.7
(3)
P 		100.1
(-0)
P 		62.7
(-1.8)
P 		120.6
(0.9)
P 		112.3
(0.5)
P 		37.1
(-3)
A 		128
B 104.4
(0.1)
P 		87.5
(-1)
P 		147.8
(3)
M 		101.1
(-0.1)
P 		84.1
(-1.2)
P 		57.7
(-3)
P 		90
C 98.4
(-1.2)
P 		108.3
(-0.6)
M 		101.2
(-1)
P 		165
(3)
P 		107.1
(-0.6)
P 		69.8
(-3)
P 		95
avr 122.5
(2.5) 		98.6
(0.5) 		103.9
(1) 		128.9
(3) 		101.2
(0.8) 		54.9
(-3) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 50.4
(3)
P 		18
(-2.4)
P 		28.6
(-0.7)
P 		14.6
(-3)
A 		36
B 35.7
(1.9)
P 		38.5
(3)
P 		23.1
(-3)
A 		25.4
(-2.1)
P 		15
C 37.9
(3)
P 		37.2
(2.7)
P 		23.1
(-3)
P 		29.5
(-0.4)
P 		15
avr 41.3
(3) 		31.2
(-0.3) 		24.9
(-2.4) 		23.2
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 30.4
(1.8)
P 		35.6
(3)
P 		13.7
(-1.9)
P 		30.6
(1.9)
P 		33.9
(2.6)
P 		9
(-3)
A 		27
B 36.3
(3)
P 		29.1
(0.1)
P 		35.9
(2.8)
M 		26.8
(-0.9)
P 		34.2
(2.1)
P 		21.5
(-3)
P 		15
C 36.5
(3)
P 		33
(1.4)
M 		25.8
(-1.9)
P 		33.2
(1.5)
P 		34.7
(2.2)
P 		23.4
(-3)
P 		13
avr 34.4
(3) 		32.6
(2.3) 		25.1
(-0.4) 		30.2
(1.5) 		34.3
(3) 		18
(-3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189424_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17957
Sequence Type Exemplar sequence
Representative Public ID C18B12.3 NCBI
Target Description C18B12.3 /REP_DB=WormBase Gene ID /WP=CE08308 /TR=Q93246 /GB=CAA20928.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Homeobox domain
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_078096(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078096 NCBI Caenorhabditis elegans C18B12.3 (C18B12.3) mRNA, complete cds. 11/11 None
GENEFINDER00000043448 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15031380:15034457:-1 11/11 None
C18B12.3 ENSEMBL cdna:known chromosome:CEL140:X:15031380:15034457:-1 gene:C18B12.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043444 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:15031379-15034457(-) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox domain
Ensembl C18B12.3
Entrez Gene 181599 Entrez gene
SwissProt Q93246 EMBL-EBI
WormBase CE08308 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 CAA20928 Hypothetical protein C18B12.3 [Caenorhabditis elegans] ref|NP_510497.1| C18B12.3 [Caenorhabditis elegans] 0.0
blast CAE63267 Hypothetical protein CBG07641 [Caenorhabditis briggsae] 1.0E-112
blast AAY51584 IP01192p [Drosophila melanogaster] 1.0E-17
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999968265523E-20
Pfam IPR001356 EMBL-EBI Homeobox 7.6E-24
Sequence
Target Sequence 
>C. ELEGANS:189424_AT
aatcaggatccgcatatgttctctccccatgcttatggaaactctatgattcctgacaat
tcatattttgaaaatgcgtcacgctccatctctgcaccaaacgttggcaattcaactctg
aacccttctctgatgtcaagcgacaatgctcaaagttgtggaggccgacgaagattcaga
accaacttcaccgaacttcaatccaccttccttgaagattcattcaaagaatcacactac
ccggatcacaaggccaaaaagtatatggctgactttttgaaaattccagaggatcgtatc
acggtatggtttcaaaaccgacgcgcaaaatggagaaggaaggagcaccgtcaacgggat
cgcactcggaatgaatctttcagtggaggatcaaactcgtttgattttgcgtgtttttct
gcgcaacatccagatgatggtccgaatgcaaagcatccaaattcttttggtattcccaat
caaccgatgtcccttgaccaattcccaatgaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCAGGATCCGCATATGTTCTCTC 436 171 385 Antisense
GTTCTCTCCCCATGCTTATGGAAAC 46 443 402 Antisense
TGAAAATGCGTCACGCTCCATCTCT 414 573 453 Antisense
TCCATCTCTGCACCAAACGTTGGCA 99 591 469 Antisense
TGGCAATTCAACTCTGAACCCTTCT 160 547 489 Antisense
TGAACCCTTCTCTGATGTCAAGCGA 539 573 503 Antisense
GAACCAACTTCACCGAACTTCAATC 630 345 563 Antisense
CAAAGAATCACACTACCCGGATCAC 259 191 609 Antisense
GAAGGAGCACCGTCAACGGGATCGC 184 333 723 Antisense
TGGTATTCCCAATCAACCGATGTCC 506 551 852 Antisense
TCCCTTGACCAATTCCCAATGAACA 301 597 874 Antisense
Sequence Source Affymetrix Proprietary Database