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[193515_at] homeobox protein (otd subfamily)

Description ZK265.4 /REP_DB=WormBase Gene ID /WP=CE15295 /GEN=ceh-8 /TR=SW:Q94398 /GB=CAB03519.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=homeobox protein (otd subfamily)
Cluster 6grp_total > 34      4grp_total > 38      6grp_cgc > 21      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 90.5
(3)
A 		21.4
(-2.6)
A 		15.8
(-3)
A 		22.3
(-2.5)
A 		75
B 67.1
(3)
A 		53.3
(1.5)
A 		10
(-3)
A 		18.1
(-2.1)
A 		57
C 108.3
(3)
P 		48.2
(-1.4)
A 		26.1
(-3)
A 		64.9
(-0.2)
A 		82
avr 88.6
(3) 		41
(-1) 		17.3
(-3) 		35.1
(-1.5) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 42.6
(0.6)
A 		43.2
(0.7)
A 		65.6
(3)
A 		23.3
(-1.4)
A 		11.1
(-2.7)
A 		7.9
(-3)
A 		58
B 57.6
(2.7)
A 		26.4
(-2.8)
A 		59.5
(3)
A 		30.6
(-2.1)
A 		28.1
(-2.5)
A 		25.4
(-3)
A 		34
C 51.9
(3)
A 		37.5
(1)
A 		14.7
(-2.1)
A 		7.8
(-3)
A 		17.7
(-1.7)
A 		26.2
(-0.5)
A 		44
avr 50.7
(3) 		35.7
(0.2) 		46.6
(2.2) 		20.6
(-2.7) 		19
(-3) 		19.8
(-2.8) 		32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 33
(3)
A 		4.7
(-2.7)
A 		4.1
(-2.8)
A 		3.3
(-3)
A 		30
B 21.4
(3)
A 		13.2
(0.4)
A 		2.3
(-3)
A 		3.9
(-2.5)
A 		19
C 35.8
(3)
P 		13.9
(-1.9)
A 		9.1
(-3)
A 		10.9
(-2.6)
A 		27
avr 30.1
(3) 		10.6
(-1.7) 		5.2
(-3) 		6
(-2.8) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 7.9
(-0.3)
A 		15.4
(3)
A 		14.3
(2.5)
A 		5.9
(-1.2)
A 		3.3
(-2.4)
A 		1.9
(-3)
A 		14
B 20
(3)
A 		8.8
(-2.6)
A 		14.4
(0.2)
A 		8.1
(-3)
A 		11.4
(-1.3)
A 		9.5
(-2.3)
A 		12
C 19.2
(3)
A 		11.4
(0.3)
A 		3.7
(-2.3)
A 		1.6
(-3)
A 		5.7
(-1.6)
A 		8.8
(-0.5)
A 		18
avr 15.7
(3) 		11.9
(0.8) 		10.8
(0.2) 		5.2
(-3) 		6.8
(-2.1) 		6.7
(-2.1) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193515_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.398
Sequence Type Exemplar sequence
Representative Public ID ZK265.4 NCBI
Target Description ZK265.4 /REP_DB=WormBase Gene ID /WP=CE15295 /GEN=ceh-8 /TR=SW:Q94398 /GB=CAB03519.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=homeobox protein (otd subfamily)
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_059845(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059845 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-8) (ceh-8) mRNA, complete cds. 11/11 None
SNAP00000032248 ENSEMBL cdna:SNAP chromosome:CEL140:I:8253980:8255641:-1 10/11 None
GENEFINDER00000032260 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8253980:8259021:-1 10/11 None
ZK265.4 ENSEMBL cdna:known chromosome:CEL140:I:8253980:8259021:-1 gene:ZK265.4 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
chrI:8253910-8258952(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox protein (otd subfamily)
Gene Symbol ceh-8
Ensembl ZK265.4
Entrez Gene 191617 Entrez gene
SwissProt Q94398 EMBL-EBI
WormBase CE38130 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
5634 nucleus inferred from sequence similarity 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
30528 transcription regulator activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03519 Hypothetical protein ZK265.4 [Caenorhabditis elegans] ref|NP_492246.2| C.Elegans Homeobox family member (ceh-8) [Caenorhabditis elegans] sp|Q94398|HM08_CAEEL Homeobox protein ceh-8 1.0E-139
blast CAB03519 Hypothetical protein ZK265.4 [Caenorhabditis elegans] ref|NP_492246.2| C.Elegans Homeobox family member (ceh-8) [Caenorhabditis elegans] sp|Q94398|HM08_CAEEL Homeobox protein ceh-8 1.0E-114
blast CAB03519 Hypothetical protein ZK265.4 [Caenorhabditis elegans] ref|NP_492246.2| C.Elegans Homeobox family member (ceh-8) [Caenorhabditis elegans] sp|Q94398|HM08_CAEEL Homeobox protein ceh-8 1.0E-91
blast AAW23065 Rx [Oikopleura dioica] 6.0E-22
blast AAF72201 retinal homeobox protein [Astyanax mexicanus] sp|Q9I9D5|RX1_ASTFA Retinal homeobox protein Rx1 1.0E-21
blast CAG09380 unnamed protein product [Tetraodon nigroviridis] 3.0E-13
blast CAA11241 homebox protein DRx [Drosophila melanogaster] 1.0E-11
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 7.00000021729836E-18
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.00000001954148E-25
Pfam IPR001356 EMBL-EBI Homeobox 0.0024
Pfam IPR001356 EMBL-EBI Homeobox 7.1E-17
Pfam IPR001356 EMBL-EBI Homeobox 0.0020
Pfam IPR001356 EMBL-EBI Homeobox 7.4E-30
Sequence
Target Sequence 
>C. ELEGANS:193515_AT
attgccagaggttcgagttcaggtatggttccaaaaccgccgagctaaatttcgccgtca
agagaagcaggattgtcaaggagaggagaagcattcactgaaagatacaatgccatcttg
gtcatggatgagtgagaataagacagatacaccgccaatgcttcctccagcaaatacact
ttcatcaactcataacaatggaatttccgatgaattcttcaagacttccgagggaaaaga
agtttatgggtttccattcgctgaatatgggactccggcggacaacacgcacgtcagcaa
aactggaaacgtttttcatttgaatttcgaagacagtgataagaaatcaatgaaaaaaga
atcgcctcaaacaccatcgacaagtagtccattcatttcggaatatcatccaccatttat
cccttattatattccaaatcaatcattttccaatgcatttaatcaatatccaatgccatt
cccctatccaattcactttgagcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGCCAGAGGTTCGAGTTCAGGTA 165 3 516 Antisense
CGCCGAGCTAAATTTCGCCGTCAAG 435 255 553 Antisense
ATAAGACAGATACACCGCCAATGCT 463 25 653 Antisense
CTTCCTCCAGCAAATACACTTTCAT 679 219 676 Antisense
GAATTCTTCAAGACTTCCGAGGGAA 187 325 727 Antisense
GTTTATGGGTTTCCATTCGCTGAAT 660 449 757 Antisense
GCTGAATATGGGACTCCGGCGGACA 104 295 775 Antisense
CGGACAACACGCACGTCAGCAAAAC 100 243 794 Antisense
AAAAAGAATCGCCTCAAACACCATC 333 129 869 Antisense
ATCCACCATTTATCCCTTATTATAT 288 39 923 Antisense
CCCCTATCCAATTCACTTTGAGCCA 488 261 996 Antisense
Sequence Source Affymetrix Proprietary Database