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[172877_x_at] fork head domain protein

Description C29F7.5 /REP_DB=WormBase Gene ID /WP=CE08446 /TR=O17617 /GB=CAB07323.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=fork head domain protein
Cluster 6grp_total > 67      4grp_total > 10      6grp_cgc > 48      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 6.3
(-2.8)
A 		7
(-2.6)
A 		4.9
(-3)
A 		39.8
(3)
A 		35
B 3.5
(-3)
A 		4.6
(-2.3)
A 		4
(-2.7)
A 		12.8
(3)
A 		9
C 3.9
(-2.7)
A 		5.7
(-2.4)
A 		2.5
(-3)
A 		34.1
(3)
A 		32
avr 4.6
(-2.8) 		5.8
(-2.5) 		3.8
(-3) 		28.9
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 19.5
(-2.2)
A 		5.1
(-2.9)
A 		56
(-0.5)
A 		2.3
(-3)
A 		30.2
(-1.7)
A 		131.6
(3)
P 		129
B 9
(-3)
A 		8.8
(-3)
A 		16.7
(-2.6)
A 		31.9
(-1.7)
A 		29.1
(-1.9)
A 		118.7
(3)
P 		110
C 13
(-2.5)
A 		8.8
(-2.7)
A 		3.7
(-3)
A 		25.5
(-1.8)
A 		6.9
(-2.8)
A 		111.5
(3)
P 		108
avr 13.8
(-2.7) 		7.6
(-3) 		25.5
(-2) 		19.9
(-2.3) 		22.1
(-2.2) 		120.6
(3) 		113
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 2.3
(-1.7)
A 		1.5
(-2.7)
A 		1.3
(-3)
A 		5.8
(3)
A 		5
B 1.1
(-2.3)
A 		1.1
(-2.3)
A 		0.9
(-3)
A 		2.7
(3)
A 		2
C 1.3
(-2.5)
A 		1.6
(-2.1)
A 		0.9
(-3)
A 		5.8
(3)
A 		5
avr 1.6
(-2.1) 		1.4
(-2.4) 		1
(-3) 		4.8
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 3.6
(-2.4)
A 		1.8
(-2.8)
A 		12.2
(-0.8)
A 		0.6
(-3)
A 		9.1
(-1.4)
A 		32
(3)
P 		31
B 3.1
(-3)
A 		2.9
(-3)
A 		4
(-2.8)
A 		8.5
(-2.2)
A 		11.8
(-1.7)
A 		44.2
(3)
P 		41
C 4.8
(-2.4)
A 		2.7
(-2.7)
A 		0.9
(-3)
A 		5.1
(-2.3)
A 		2.2
(-2.8)
A 		37.3
(3)
P 		36
avr 3.8
(-2.8) 		2.5
(-3) 		5.7
(-2.5) 		4.7
(-2.6) 		7.7
(-2.1) 		37.8
(3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172877_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17853
Sequence Type Exemplar sequence
Representative Public ID C29F7.5 NCBI
Target Description C29F7.5 /REP_DB=WormBase Gene ID /WP=CE08446 /TR=O17617 /GB=CAB07323.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=fork head domain 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_077836(9), NM_077837(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077836 NCBI Caenorhabditis elegans ForKHead transcription factor family member (fkh-3) (fkh-3) mRNA, complete cds. 9/11 A 
NM_077837 NCBI Caenorhabditis elegans ForKHead transcription factor family member (fkh-4) (fkh-4) mRNA, complete cds. 11/11 A 
SNAP00000036549 ENSEMBL cdna:SNAP chromosome:CEL140:X:13421853:13423348:-1 9/11 None
GENEFINDER00000036560 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13421853:13423348:-1 9/11 None
SNAP00000036550 ENSEMBL cdna:SNAP chromosome:CEL140:X:13427244:13428763:-1 11/11 None
GENEFINDER00000036554 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13427244:13428763:-1 11/11 None
C29F7.4 ENSEMBL cdna:known chromosome:CEL140:X:13421816:13423332:-1 gene:C29F7.4 9/11 A 
C29F7.5 ENSEMBL cdna:known chromosome:CEL140:X:13427119:13431517:-1 gene:C29F7.5 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:13427243-13431517(-) 100.0 100.0
Public Domain and Genome References
Gene Title fork head domain protein
fork head domain protein
Gene Symbol fkh-3
fkh-4
Ensembl C29F7.4
C29F7.5
Entrez Gene 181465 Entrez gene
181466 Entrez gene
SwissProt O17618 EMBL-EBI
O17617 EMBL-EBI
WormBase CE08445 Wormbase
CE08446 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07324 Hypothetical protein C29F7.4 [Caenorhabditis elegans] ref|NP_510237.1| ForKHead transcription factor family member (fkh-3) [Caenorhabditis elegans] 0.0
blast CAB07323 Hypothetical protein C29F7.5 [Caenorhabditis elegans] ref|NP_510238.1| ForKHead transcription factor family member (fkh-4) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.Forkhead DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Forkhead DNA-binding domain 8.9999997143897E-22
scop a.4.5.Forkhead DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Forkhead DNA-binding domain 9.99999968265523E-22
scop a.4.5.Forkhead DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Forkhead DNA-binding domain 1.99999993653105E-21
scop a.4.5.Forkhead DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Forkhead DNA-binding domain 3.99999987306209E-21
Pfam IPR001766 EMBL-EBI Fork head transcription factor 1.8E-15
Pfam IPR001766 EMBL-EBI Fork head transcription factor 1.4E-14
Pfam IPR001766 EMBL-EBI Fork head transcription factor 1.8E-15
Pfam IPR001766 EMBL-EBI Fork head transcription factor 1.4E-14
Sequence
Target Sequence 
>C. ELEGANS:172877_X_AT
tgctggacaaattggccttccgcgaagtcttttttatcaaatcattggaaacggaatccc
atttcttgctggtccagaaaactcatcaatgttctaccaattgcttggaatgggcaaagt
tgttggatatttggaaactcgatactttcgagagcactacagaagcgaacacgccgcgac
cgagcctaagtatgaagaggattacgctaatttcactgaaaaaattccttccaatgctga
gaatctgatgtcatatggagcagcaaccgagaggaactttcaaaaatttgacttcaccga
tgaagaaattgaattgtttcatttgaacataagttcatatcattcagtgcagaaaacgtg
caaagaatgcaatctaccaaactggtgcacaccatctgtgggagatgttgaaacttacgt
ctttggaagacaagttcctatgcctgtgaacacaccagtaattctacaacaatttgaaac
tgtcgctgaacaggaaggcatcagaaacaatccgctcgaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTGGACAAATTGGCCTTCCGCGA 708 581 1605 Antisense
TGGCCTTCCGCGAAGTCTTTTTTAT 522 541 1617 Antisense
AAACGGAATCCCATTTCTTGCTGGT 176 127 1653 Antisense
TGCTGGTCCAGAAAACTCATCAATG 482 583 1671 Antisense
CTACAGAAGCGAACACGCCGCGACC 420 225 1761 Antisense
CCGCGACCGAGCCTAAGTATGAAGA 129 263 1778 Antisense
GAAAAAATTCCTTCCAATGCTGAGA 610 353 1822 Antisense
GGAGCAGCAACCGAGAGGAACTTTC 236 521 1861 Antisense
ACTGGTGCACACCATCTGTGGGAGA 552 95 1985 Antisense
GAAGACAAGTTCCTATGCCTGTGAA 523 339 2030 Antisense
GGCATCAGAAACAATCCGCTCGAAG 8 537 2101 Antisense
Sequence Source Affymetrix Proprietary Database