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[190946_at] homeobox

Description T26C11.7 /REP_DB=WormBase Gene ID /WP=CE05026 /GEN=ceh-39 /TR=SW:Q22812 /GB=AAC48215.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox
Cluster 6grp_total > 36      4grp_total > 46      6grp_cgc > 15      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 115.6
(3)
A 		67.2
(0.1)
A 		15.9
(-3)
A 		20.4
(-2.7)
A 		100
B 81.3
(3)
A 		19.8
(-2.5)
A 		14.1
(-3)
A 		21.8
(-2.3)
A 		67
C 64.7
(3)
A 		38.2
(-0.5)
A 		18.9
(-3)
A 		21.4
(-2.7)
A 		46
avr 87.2
(3) 		41.7
(-0.9) 		16.3
(-3) 		21.2
(-2.6) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 66.1
(0)
A 		120.1
(3)
A 		48.2
(-1)
A 		92.8
(1.5)
A 		11.6
(-3)
A 		98.1
(1.8)
A 		109
B 100
(3)
A 		72.4
(1)
A 		48.4
(-0.7)
A 		16.5
(-3)
A 		43.7
(-1)
A 		61.9
(0.3)
A 		84
C 95
(2.9)
A 		96.7
(3)
A 		30.8
(-2.8)
A 		28.7
(-3)
A 		64.3
(0.1)
A 		83.5
(1.8)
A 		68
avr 87
(2) 		96.4
(3) 		42.5
(-2.7) 		46
(-2.4) 		39.9
(-3) 		81.2
(1.4) 		57
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 42.1
(3)
A 		14.6
(-1.2)
A 		4.1
(-2.8)
A 		3
(-3)
A 		39
B 25.9
(3)
A 		4.9
(-2.6)
A 		3.3
(-3)
A 		4.6
(-2.7)
A 		23
C 21.4
(3)
A 		11
(-0.5)
A 		6.6
(-2)
A 		3.6
(-3)
A 		18
avr 29.8
(3) 		10.2
(-1.5) 		4.7
(-2.8) 		3.7
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 12.2
(-1.7)
A 		42.7
(3)
A 		10.5
(-1.9)
A 		23.5
(0.1)
A 		3.5
(-3)
A 		23.9
(0.1)
A 		39
B 34.8
(3)
A 		24.1
(0.9)
A 		11.8
(-1.5)
A 		4.4
(-3)
A 		17.8
(-0.4)
A 		23.1
(0.7)
A 		30
C 35.2
(3)
A 		29.5
(1.8)
A 		7.8
(-2.6)
A 		5.8
(-3)
A 		20.8
(0.1)
A 		28
(1.5)
A 		29
avr 27.4
(1.7) 		32.1
(3) 		10
(-3) 		11.2
(-2.7) 		14
(-1.9) 		25
(1.1) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190946_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18386
Sequence Type Exemplar sequence
Representative Public ID T26C11.7 NCBI
Target Description T26C11.7 /REP_DB=WormBase Gene ID /WP=CE05026 /GEN=ceh-39 /TR=SW:Q22812 /GB=AAC48215.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox
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_075941(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075941 NCBI Caenorhabditis elegans T26C11.7 (homeobox) mRNA, complete cds. 11/11 None
SNAP00000040397 ENSEMBL cdna:SNAP chromosome:CEL140:X:1854399:1855870:-1 11/11 None
GENEFINDER00000040406 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1854399:1855870:-1 11/11 None
T26C11.7 ENSEMBL cdna:known chromosome:CEL140:X:1853927:1856166:-1 gene:T26C11.7 11/11 A 
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:1854398-1855870(-) 100.0 100.0
Public Domain and Genome References
Gene Title homeobox
Gene Symbol ceh-39
Ensembl T26C11.7
Entrez Gene 180505 Entrez gene
SwissProt Q22812 EMBL-EBI
WormBase CE05026 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 NP_508342 T26C11.7 [Caenorhabditis elegans] gb|AAC48215.1| C.elegans homeobox protein 39 [Caenorhabditis elegans] sp|Q22812|HM39_CAEEL Homeobox protein ceh-39 0.0
blast NP_508341 T26C11.6 [Caenorhabditis elegans] gb|AAC48216.2| C.elegans homeobox protein 21 [Caenorhabditis elegans] emb|CAD20808.1| CEH-21 protein [Caenorhabditis elegans] sp|Q22811|HM21_CAEEL Homeobox protein ceh-21 2.0E-67
blast T28912 probable homeobox protein - Caenorhabditis elegans 2.0E-67
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999974737875E-5
Pfam IPR001356 EMBL-EBI Homeobox 5.1E-5
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 1.1E-55
Sequence
Target Sequence 
>C. ELEGANS:190946_AT
atctctcggctcacatgaacaggcagattggcgatgatgaagagctcgacactcaactca
tcgctcatcgtattctggacgagctcaaagagcaatgcatcccacaagcttcacttgccg
ttaaagttctaggcagaagccaaggaacactgtcggatctgctccgcaagccgaaaccat
ggggcattatgaagaatggtcgaggaacgttccagcgtatggccaactggcttgacttgg
atccggtagttcgtcgtgcattgtgctttatgaaaaaggaagatgttgcgaggatcactg
ggatggctgagccaactccagcaaaaagagcacgccaaacaacgcctagcgacgaacgaa
tccgacgcttcacattcacgcaaacccagctcgactcgttgcatacagtcttccaacaac
aagatcgtccgaatcgcgaaatgcaacaggctctgagtgcgacattgaagctcaaccgtt
ccaccgtcggcaatttctttatgaacgcccgccgtcgtcttccaaaagctgcaccggtca
gtcaaaaccttgtcgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCTCTCGGCTCACATGAACAGGCA 215 33 608 Antisense
TCAACTCATCGCTCATCGTATTCTG 575 629 660 Antisense
AAGAGCAATGCATCCCACAAGCTTC 134 155 695 Antisense
GCTCCGCAAGCCGAAACCATGGGGC 428 295 768 Antisense
GACTTGGATCCGGTAGTTCGTCGTG 67 237 841 Antisense
GGATCACTGGGATGGCTGAGCCAAC 641 511 899 Antisense
CGCCTAGCGACGAACGAATCCGACG 656 255 950 Antisense
GCTCGACTCGTTGCATACAGTCTTC 194 299 996 Antisense
GCGACATTGAAGCTCAACCGTTCCA 178 289 1066 Antisense
GTTCCACCGTCGGCAATTTCTTTAT 543 439 1085 Antisense
CCGGTCAGTCAAAACCTTGTCGCCG 234 263 1141 Antisense
Sequence Source Affymetrix Proprietary Database