[Home] | [Total List]

[191117_at] Homeobox domain

Description C16C2.1 /REP_DB=WormBase Gene ID /WP=CE15618 /GEN=ceh-5 /TR=O17588 /GB=CAB02740.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Homeobox domain
Cluster 6grp_total > 09      4grp_total > 26      6grp_cgc > 0      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 16.9
(-3)
A 		42.3
(3)
A 		39.3
(2.3)
A 		41.4
(2.8)
A 		25
B 17.2
(-2.7)
A 		58.3
(3)
A 		15
(-3)
A 		40.2
(0.5)
A 		43
C 15.9
(-1.8)
A 		7.8
(-3)
A 		15.9
(-1.8)
A 		47.5
(3)
A 		40
avr 16.7
(-3) 		36.1
(1.4) 		23.4
(-1.5) 		43
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 36.8
(3)
A 		13.2
(-1.4)
A 		20.1
(-0.1)
A 		30.7
(1.9)
A 		4.5
(-3)
A 		5.7
(-2.8)
A 		32
B 22.2
(1.1)
A 		4.5
(-3)
A 		4.6
(-3)
A 		9.6
(-1.8)
A 		10.9
(-1.5)
A 		30.7
(3)
A 		26
C 33.6
(2.6)
A 		2
(-2.9)
A 		4.5
(-2.4)
A 		35.7
(3)
A 		1.2
(-3)
A 		5.2
(-2.3)
A 		35
avr 30.9
(3) 		6.6
(-2.7) 		9.7
(-2) 		25.3
(1.7) 		5.5
(-3) 		13.9
(-1) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 6.1
(-3)
A 		9.2
(1.4)
A 		10.3
(3)
A 		6.1
(-3)
A 		4
B 5.5
(-1.9)
A 		14.4
(3)
A 		3.5
(-3)
A 		8.6
(-0.2)
A 		11
C 5.3
(0.2)
A 		2.2
(-3)
A 		5.6
(0.5)
A 		8
(3)
A 		6
avr 5.6
(-3) 		8.6
(3) 		6.5
(-1.2) 		7.6
(1) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 6.8
(2.1)
A 		4.7
(0.1)
A 		4.4
(-0.2)
A 		7.8
(3)
A 		1.4
(-3)
A 		1.4
(-3)
A 		6
B 7.7
(0.8)
A 		1.5
(-2.8)
A 		1.1
(-3)
A 		2.5
(-2.2)
A 		4.4
(-1.1)
A 		11.5
(3)
A 		10
C 12.5
(3)
A 		0.6
(-2.9)
A 		1.2
(-2.6)
A 		7.2
(0.4)
A 		0.4
(-3)
A 		1.8
(-2.3)
A 		12
avr 9
(3) 		2.3
(-2.8) 		2.2
(-2.9) 		5.8
(0.2) 		2.1
(-3) 		4.9
(-0.6) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191117_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1003
Sequence Type Exemplar sequence
Representative Public ID C16C2.1 NCBI
Target Description C16C2.1 /REP_DB=WormBase Gene ID /WP=CE15618 /GEN=ceh-5 /TR=O17588 /GB=CAB02740.1 /SUBMIT=HINXTON /CHR=1 /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_060185(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060185 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-5) (ceh-5) mRNA, complete cds. 11/11 None
SNAP00000032652 ENSEMBL cdna:SNAP chromosome:CEL140:I:9735338:9736008:1 10/11 None
GENEFINDER00000032656 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9735338:9736503:1 10/11 None
C16C2.1 ENSEMBL cdna:known chromosome:CEL140:I:9735338:9737181:1 gene:C16C2.1 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
chrI:9735268-9735792(+) 66.0 66.0
Public Domain and Genome References
Gene Title Homeobox domain
Gene Symbol ceh-5
Ensembl C16C2.1
Entrez Gene 191616 Entrez gene
SwissProt P20269 EMBL-EBI
WormBase CE15618 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 CAB02740 Hypothetical protein C16C2.1 [Caenorhabditis elegans] ref|NP_492586.1| C.Elegans Homeobox family member (ceh-5) [Caenorhabditis elegans] sp|P20269|HM05_CAEEL Homeobox protein ceh-5 2.0E-61
blast CAB02740 Hypothetical protein C16C2.1 [Caenorhabditis elegans] ref|NP_492586.1| C.Elegans Homeobox family member (ceh-5) [Caenorhabditis elegans] sp|P20269|HM05_CAEEL Homeobox protein ceh-5 1.0E-47
blast CAE60240 Hypothetical protein CBG03813 [Caenorhabditis briggsae] 2.0E-47
blast CAE60240 Hypothetical protein CBG03813 [Caenorhabditis briggsae] 8.0E-46
blast CAE60240 Hypothetical protein CBG03813 [Caenorhabditis briggsae] 6.0E-40
blast NP_990130 ventral anterior homeobox 1 [Gallus gallus] gb|AAF20017.1| Vax [Gallus gallus] 4.0E-20
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.9999999188758E-18
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.00000010213061E-19
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 7.99999974612418E-19
Pfam IPR001356 EMBL-EBI Homeobox 7.6E-30
Sequence
Target Sequence 
>C. ELEGANS:191117_AT
atgccttctgccgatacagagttcatacgagttattcgcatcaagagtgctaatggttca
gagaagatgcttgaaattccagcaaaacttgatttggagagaccgaagagaccgcgtact
gtattcaccgatgagcaattagagaagctagaagaatcattcaacacttcaggctatctc
agtgggtcgactcgagcaaaactagcggaatcccttggtcttagtgacaatcaggtcaaa
gtttggtttcaaaatcgaagaaccaagcagaagaaaatcgattctaggaaatttactctt
caaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCTTCTGCCGATACAGAGTTCA 363 41 13 Antisense
GAGTTCATACGAGTTATTCGCATCA 133 399 31 Antisense
TTCGCATCAAGAGTGCTAATGGTTC 494 677 47 Antisense
GGAGAGACCGAAGAGACCGCGTACT 72 517 108 Antisense
GAAGAGACCGCGTACTGTATTCACC 332 339 117 Antisense
CATTCAACACTTCAGGCTATCTCAG 702 211 170 Antisense
GCTATCTCAGTGGGTCGACTCGAGC 676 303 185 Antisense
GGTCGACTCGAGCAAAACTAGCGGA 430 501 197 Antisense
AACTAGCGGAATCCCTTGGTCTTAG 259 137 212 Antisense
GAATCCCTTGGTCTTAGTGACAATC 184 173 220 Antisense
GATTCTAGGAAATTTACTCTTCAAA 646 429 292 Antisense
Sequence Source Affymetrix Proprietary Database