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[192047_at] EF-hand calcium binding protein

Description F40F9.8 /REP_DB=WormBase Gene ID /WP=CE05857 /TR=Q20238 /GB=CAA94763.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=EF-hand calcium binding protein
Cluster 6grp_total > 57      4grp_total > 01      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 3.9
(-3)
A 		9.8
(-1.5)
A 		26
(2.5)
A 		27.9
(3)
A 		24
B 30.6
(0.8)
A 		6.9
(-3)
A 		16.2
(-1.5)
A 		44.5
(3)
A 		38
C 4
(-2.9)
A 		2.5
(-3)
A 		12.7
(-2)
A 		62.9
(3)
A 		60
avr 12.8
(-2) 		6.4
(-3) 		18.3
(-1.2) 		45.1
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 5.4
(1.6)
A 		3.5
(-1)
A 		2
(-3)
A 		2.2
(-2.7)
A 		6.4
(3)
A 		2.3
(-2.6)
A 		4
B 5.5
(-2.1)
A 		4
(-2.5)
A 		11.9
(-0.7)
A 		6.8
(-1.8)
A 		1.6
(-3)
A 		28.6
(3)
A 		27
C 10.9
(3)
A 		9.7
(2.2)
A 		5.2
(-0.6)
A 		6.1
(-0.1)
A 		3.3
(-1.9)
A 		1.5
(-3)
A 		9
avr 7.3
(-0) 		5.7
(-1.4) 		6.4
(-0.8) 		5
(-2) 		3.8
(-3) 		10.8
(3) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 1.4
(-3)
A 		2.1
(-2.2)
A 		6.8
(3)
A 		4.1
(-0)
A 		5
B 9.8
(3)
A 		1.7
(-3)
A 		3.8
(-1.4)
A 		9.5
(2.8)
A 		8
C 1.3
(-2.6)
A 		0.7
(-3)
A 		4.4
(-0.8)
A 		10.6
(3)
A 		10
avr 4.2
(-0.5) 		1.5
(-3) 		5
(0.2) 		8.1
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 1
(-0.6)
A 		1.3
(0.6)
A 		0.4
(-3)
A 		0.5
(-2.6)
A 		1.9
(3)
A 		0.5
(-2.6)
A 		2
B 1.9
(-2.2)
A 		1.3
(-2.6)
A 		2.9
(-1.6)
A 		1.8
(-2.3)
A 		0.6
(-3)
A 		10.7
(3)
A 		10
C 4
(3)
A 		2.9
(1.1)
A 		1.3
(-1.6)
A 		1.2
(-1.8)
A 		1.1
(-2)
A 		0.5
(-3)
A 		4
avr 2.3
(-0.6) 		1.8
(-1.7) 		1.5
(-2.3) 		1.2
(-3) 		1.2
(-3) 		3.9
(3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192047_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12212
Sequence Type Exemplar sequence
Representative Public ID F40F9.8 NCBI
Target Description F40F9.8 /REP_DB=WormBase Gene ID /WP=CE05857 /TR=Q20238 /GB=CAA94763.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=EF-hand calcium binding 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_073109(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073109 NCBI Caenorhabditis elegans F40F9.8 (F40F9.8) mRNA, complete cds. 11/11 None
SNAP00000009258 ENSEMBL cdna:SNAP chromosome:CEL140:V:9736685:9737898:1 11/11 None
GENEFINDER00000009263 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9736685:9737898:1 11/11 None
F40F9.8 ENSEMBL cdna:known chromosome:CEL140:V:9736854:9737898:1 gene:F40F9.8 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
chrV:9736853-9737898(+) 100.0 100.0
Public Domain and Genome References
Gene Title EF-hand calcium binding protein
Ensembl F40F9.8
Entrez Gene 185545 Entrez gene
SwissProt Q20238 EMBL-EBI
WormBase CE05857 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94763 Hypothetical protein F40F9.8 [Caenorhabditis elegans] ref|NP_505510.1| F40F9.8 [Caenorhabditis elegans] 1.0E-73
blast CAA94763 Hypothetical protein F40F9.8 [Caenorhabditis elegans] ref|NP_505510.1| F40F9.8 [Caenorhabditis elegans] 3.0E-73
blast CAE72243 Hypothetical protein CBG19361 [Caenorhabditis briggsae] 3.0E-66
blast CAE72243 Hypothetical protein CBG19361 [Caenorhabditis briggsae] 7.0E-66
blast EAL89783 calmodulin [Aspergillus fumigatus Af293] ref|XP_751821.1| calmodulin [Aspergillus fumigatus Af293] 5.0E-14
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 7.8E-5
Sequence
Target Sequence 
>C. ELEGANS:192047_AT
gacgaggattctgatggtttgattgaaaccgacgatgtgagtcacgttctccgaagcttt
ggattgaaccccagtcaaacggaattgcaattggtcagtgaacaaactgcaaagaaaaat
ggaagagtttcattcgatgaccttctgccccgtgtcgtattggcaattcaaaatgaagaa
tggaaagatgatactccgaaacaaatccatgctgcatttcaagtaataacatctaataat
tatgttcaaaaagatacattattgcaattgctcacttcaattggagaaccattgactcca
caagaagttaagcaatttctgaatcatgtcagcattcgagcaaatggagatattgactgg
gtttcgtatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGAGGATTCTGATGGTTTGATTG 247 379 19 Antisense
GAAACCGACGATGTGAGTCACGTTC 454 357 43 Antisense
AGTCACGTTCTCCGAAGCTTTGGAT 439 61 58 Antisense
GAAGCTTTGGATTGAACCCCAGTCA 243 341 71 Antisense
GAACCCCAGTCAAACGGAATTGCAA 285 347 84 Antisense
AGAGTTTCATTCGATGACCTTCTGC 702 67 142 Antisense
TTCTGCCCCGTGTCGTATTGGCAAT 60 693 161 Antisense
ACTCCGAAACAAATCCATGCTGCAT 524 99 211 Antisense
AGAACCATTGACTCCACAAGAAGTT 562 71 303 Antisense
TCTGAATCATGTCAGCATTCGAGCA 123 605 336 Antisense
GGAGATATTGACTGGGTTTCGTATG 345 517 364 Antisense
Sequence Source Affymetrix Proprietary Database