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[189446_at] homeobox protein

Description F34D6.2 /REP_DB=WormBase Gene ID /WP=CE09909 /TR=O17184 /GB=AAC71153.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein
Cluster 6grp_total > 90      4grp_total > 27      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 25
(-0.7)
A 		50.9
(3)
A 		8.8
(-3)
A 		48.5
(2.7)
A 		42
B 21
(-3)
A 		44.1
(0.4)
A 		49.2
(1.2)
A 		61.6
(3)
A 		41
C 69.3
(0.9)
A 		99.2
(2.7)
A 		7.2
(-3)
A 		103.4
(3)
A 		96
avr 38.4
(-1) 		64.7
(2.2) 		21.7
(-3) 		71.2
(3) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 7.5
(-3)
A 		14
(-1.7)
A 		16.3
(-1.3)
A 		38.2
(3)
A 		28.5
(1.1)
A 		36.4
(2.6)
A 		31
B 21.3
(-0.3)
A 		42.2
(3)
A 		4
(-3)
A 		36.8
(2.2)
A 		4.8
(-2.9)
A 		5.9
(-2.7)
A 		38
C 10.7
(2.6)
A 		11.2
(3)
A 		3.8
(-3)
A 		5.4
(-1.7)
A 		9.3
(1.5)
A 		5.3
(-1.8)
A 		7
avr 13.2
(-1.3) 		22.5
(1.6) 		8
(-3) 		26.8
(3) 		14.2
(-1) 		15.9
(-0.5) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 9.1
(1.6)
A 		11.1
(3)
A 		2.3
(-3)
A 		7.1
(0.3)
A 		9
B 6.7
(-3)
A 		10.9
(0.9)
A 		11.4
(1.4)
A 		13.1
(3)
A 		6
C 22.9
(1.7)
A 		28.5
(3)
A 		2.5
(-3)
A 		17.4
(0.4)
A 		26
avr 12.9
(0.9) 		16.8
(3) 		5.4
(-3) 		12.5
(0.7) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 1.4
(-3)
A 		5
(-0.4)
A 		3.5
(-1.5)
A 		9.7
(3)
A 		8.6
(2.2)
A 		8.9
(2.4)
A 		8
B 7.4
(-0)
A 		14
(3)
A 		1
(-3)
A 		9.8
(1.1)
A 		1.9
(-2.6)
A 		2.2
(-2.4)
A 		13
C 4
(3)
A 		3.4
(1.8)
A 		1
(-3)
A 		1.1
(-2.8)
A 		3
(1)
A 		1.8
(-1.4)
A 		3
avr 4.3
(-0.4) 		7.5
(3) 		1.8
(-3) 		6.9
(2.4) 		4.5
(-0.2) 		4.3
(-0.4) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189446_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5563
Sequence Type Exemplar sequence
Representative Public ID F34D6.2 NCBI
Target Description F34D6.2 /REP_DB=WormBase Gene ID /WP=CE09909 /TR=O17184 /GB=AAC71153.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein
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_061931(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061931 NCBI Caenorhabditis elegans F34D6.2 (F34D6.2) mRNA, complete cds. 11/11 None
SNAP00000012248 ENSEMBL cdna:SNAP chromosome:CEL140:II:2682777:2684308:-1 9/11 None
GENEFINDER00000012256 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2681464:2684308:-1 10/11 None
F34D6.2 ENSEMBL cdna:known chromosome:CEL140:II:2683398:2684308:-1 gene:F34D6.2 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
chrII:2683396-2684307(-) 98.53 100.0
Public Domain and Genome References
Gene Title homeobox protein
Ensembl F34D6.2
Entrez Gene 185241 Entrez gene
SwissProt O17184 EMBL-EBI
WormBase CE09909 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 AAC71153 Hypothetical protein F34D6.2 [Caenorhabditis elegans] ref|NP_494332.1| F34D6.2 [Caenorhabditis elegans] 1.0E-92
blast AAC71153 Hypothetical protein F34D6.2 [Caenorhabditis elegans] ref|NP_494332.1| F34D6.2 [Caenorhabditis elegans] 5.0E-87
blast AAC71153 Hypothetical protein F34D6.2 [Caenorhabditis elegans] ref|NP_494332.1| F34D6.2 [Caenorhabditis elegans] 2.0E-65
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.09999990463257
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 0.730000019073486
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 0.330000013113022
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 0.180000007152557
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.00000023748726E-4
Pfam IPR001356 EMBL-EBI Homeobox 0.0038
Sequence
Target Sequence 
>C. ELEGANS:189446_AT
agcttctggagtcttcgcaggttgaggaaattgatatgtgggaaatactaaaaaactctt
caaatgtgctccgagactactacgatatgggcaattttaagatttcgggcaacaaggaga
agctggtggctctcacgggaatgtccgatcggcagatcgagcttcacctccaaaagtacc
gccgtgaggacaagaaaaacggcgtcatcatcccaaaatccgtgtacaccccggagcaac
acgctgtgctccgcgaaggctttgagcactgctcctggctttcaaaatccacgttgaaca
agctggccagcgagtcagggctcaccagaactcaggtaaagctggaaattctgaaaattt
tggaaaaaaaaactgaaaacttgcaggtttccacgtggttcagcaaggaaagacgagtga
gagccgggaaaaaatcgaaaagatcgaaaaaaattgtgaaaaccgaaacgccggcatttg
tcttgtcctaccaacctttggagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTTCTGGAGTCTTCGCAGGTTGA 322 79 26 Antisense
ATGTGCTCCGAGACTACTACGATAT 654 49 89 Antisense
GTGGCTCTCACGGGAATGTCCGATC 261 491 151 Antisense
TTCACCTCCAAAAGTACCGCCGTGA 95 665 188 Antisense
AAAACGGCGTCATCATCCCAAAATC 327 131 221 Antisense
TCCGCGAAGGCTTTGAGCACTGCTC 446 595 275 Antisense
ACTGCTCCTGGCTTTCAAAATCCAC 44 99 293 Antisense
TCCACGTTGAACAAGCTGGCCAGCG 611 587 313 Antisense
CGAGTCAGGGCTCACCAGAACTCAG 89 251 336 Antisense
GAAAACTTGCAGGTTTCCACGTGGT 418 355 400 Antisense
TCTTGTCCTACCAACCTTTGGAGCA 258 617 506 Antisense
Sequence Source Affymetrix Proprietary Database