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[176628_at]

Description F16H11.4 /REP_DB=WormBase Gene ID /WP=CE04399 /GEN=ceh-1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 31      4grp_high_8_8 > 21      6grp_total > 53      4grp_total > 11      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 49.2
(-1.8)
P 		28.8
(-3)
A 		49.5
(-1.8)
A 		134.6
(3)
P 		106
B 79.9
(3)
P 		72.2
(1.4)
P 		50.7
(-3)
P 		76.6
(2.3)
P 		29
C 45.7
(-3)
P 		70.4
(-1)
P 		48.4
(-2.8)
P 		120.1
(3)
P 		74
avr 58.3
(-2.1) 		57.1
(-2.3) 		49.5
(-3) 		110.4
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 78.9
(0.7)
P 		44.9
(-2.4)
P 		104.4
(3)
P 		39.9
(-2.8)
P 		37.8
(-3)
M 		59.2
(-1.1)
M 		67
B 28.8
(-3)
P 		71.3
(-0.6)
P 		136.7
(3)
P 		58.2
(-1.4)
P 		51.8
(-1.7)
P 		34.9
(-2.7)
P 		108
C 45
(-2.7)
P 		96.1
(3)
P 		59.7
(-1)
P 		41.9
(-3)
A 		42.7
(-2.9)
P 		52.2
(-1.9)
P 		54
avr 50.9
(-2.3) 		70.8
(-0.1) 		100.3
(3) 		46.7
(-2.7) 		44.1
(-3) 		48.8
(-2.5) 		56
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 17.9
(2.2)
P 		6.3
(-3)
A 		12.9
(-0)
A 		19.7
(3)
P 		13
B 25.5
(3)
P 		17.8
(-0.3)
P 		11.7
(-3)
P 		16.3
(-1)
P 		14
C 15.1
(-3)
P 		20.3
(3)
P 		16.9
(-0.9)
P 		20.2
(2.9)
P 		5
avr 19.5
(3) 		14.8
(-1.9) 		13.8
(-3) 		18.7
(2.2) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 14.5
(-0.9)
P 		16
(-0.2)
P 		22.7
(3)
P 		10.1
(-3)
P 		11.4
(-2.4)
M 		14.4
(-1)
M 		13
B 10
(-3)
P 		23.7
(0.5)
P 		33.2
(3)
P 		15.4
(-1.6)
P 		21.1
(-0.1)
P 		13
(-2.2)
P 		23
C 16.7
(-0.6)
P 		29.3
(3)
P 		15.2
(-1)
P 		8.4
(-3)
A 		13.8
(-1.4)
P 		17.5
(-0.4)
P 		21
avr 13.7
(-1.8) 		23
(2.7) 		23.7
(3) 		11.3
(-3) 		15.4
(-1) 		15
(-1.2) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176628_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16323
Sequence Type Exemplar sequence
Representative Public ID F16H11.4 NCBI
Target Description F16H11.4 /REP_DB=WormBase Gene ID /WP=CE04399 /GEN=ceh-1 /SUBMIT=ST.LOUIS /CHR=X /FEA=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_076395(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076395 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-1) (ceh-1) mRNA, complete cds. 11/11 None
SNAP00000010347 ENSEMBL cdna:SNAP chromosome:CEL140:X:4653463:4654126:-1 11/11 None
GENEFINDER00000010356 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4653463:4654126:-1 11/11 None
F16H11.4 ENSEMBL cdna:known chromosome:CEL140:X:4653463:4654009:-1 gene:F16H11.4 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
chrX:4653463-4654010(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ceh-1
Ensembl F16H11.4
Entrez Gene 191614 Entrez gene
SwissProt P53547 EMBL-EBI
WormBase CE04399 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.19720.1.S1_AT similar to NK1 transcription factor-related protein 2 (Homeobox protein SAX-1) (NKX-1.1) cfa
MOE430A:1422050_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430A_2:1422050_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430_2:1422050_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430A_2:1426177_A_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOE430A:1426177_A_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430_2:1426177_A_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MU11KSUBB:X75384_S_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MG-U74AV2:98337_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MG-U74CV2:141010_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOE430A:1422049_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430A_2:1422049_AT NK1 transcription factor related, locus 2 (Drosophila) mm
MOUSE430_2:1422049_AT NK1 transcription factor related, locus 2 (Drosophila) mm
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 AAA98004 C.elegans homeobox protein 1 [Caenorhabditis elegans] ref|NP_508796.1| C.Elegans Homeobox family member (ceh-1) [Caenorhabditis elegans] sp|P53547|HM01_CAEEL Homeobox protein ceh-1 3.0E-59
blast AAA98004 C.elegans homeobox protein 1 [Caenorhabditis elegans] ref|NP_508796.1| C.Elegans Homeobox family member (ceh-1) [Caenorhabditis elegans] sp|P53547|HM01_CAEEL Homeobox protein ceh-1 6.0E-59
blast AAA98004 C.elegans homeobox protein 1 [Caenorhabditis elegans] ref|NP_508796.1| C.Elegans Homeobox family member (ceh-1) [Caenorhabditis elegans] sp|P53547|HM01_CAEEL Homeobox protein ceh-1 1.0E-55
blast CAE68627 Hypothetical protein CBG14514 [Caenorhabditis briggsae] 4.0E-51
blast CAE68627 Hypothetical protein CBG14514 [Caenorhabditis briggsae] 8.0E-51
blast CAE68627 Hypothetical protein CBG14514 [Caenorhabditis briggsae] 1.0E-47
blast CAB57215 unnamed protein product [Caenorhabditis elegans] pir||T37298 homeobox protein ceh-1 - Caenorhabditis elegans (fragment) 7.0E-32
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.00000001686238E-16
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999993653105E-19
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999984132761E-20
Pfam IPR001356 EMBL-EBI Homeobox 2.1E-28
Pfam IPR001356 EMBL-EBI Homeobox 2.1E-28
Pfam IPR001356 EMBL-EBI Homeobox 4.6E-14
Pfam IPR001356 EMBL-EBI Homeobox 7.6E-6
Sequence
Target Sequence 
>C. ELEGANS:176628_AT
gcgagccagaactgcattcacttatgagcaattggttgcgctggaaaacaaattcaagac
ttcacgttatttgagcgtcgtagagcgtttaaatttggcaattcaacttcagctttctga
aactcaggtaaaaatctggttccaaaaccggcgtaccaagtggaagaaacacaatccggg
acaagatgcaaatacgcctcaaaccccaccatcttccgatgaaactcagattcaaccaat
tctaccggcaaatcctataacttcatttagttcattgcttttgccgccaataatatctcc
agcaaactcagcagttctacaaggaacatccatcccattaacactgttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAGCCAGAACTGCATTCACTTAT 76 291 18 Antisense
GACTTCACGTTATTTGAGCGTCGTA 434 371 75 Antisense
TTGGCAATTCAACTTCAGCTTTCTG 287 707 112 Antisense
AAGATGCAAATACGCCTCAAACCCC 461 151 200 Antisense
CCCACCATCTTCCGATGAAACTCAG 119 259 222 Antisense
GATTCAACCAATTCTACCGGCAAAT 182 431 246 Antisense
TACCGGCAAATCCTATAACTTCATT 459 649 260 Antisense
ATTTAGTTCATTGCTTTTGCCGCCA 363 15 282 Antisense
GCCGCCAATAATATCTCCAGCAAAC 697 285 300 Antisense
ATCTCCAGCAAACTCAGCAGTTCTA 646 33 312 Antisense
CATCCATCCCATTAACACTGTTCAA 368 211 344 Antisense
Sequence Source Affymetrix Proprietary Database