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[174271_at] EF hand domains

Description C31702_rc /REP_DB=TREMBL Accession /GB=C31702 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk290f9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 60      4grp_highest_8_8 > 09      4grp_high_8_8 > 62      6grp_highest_nonorm > 57      6grp_total > 80      4grp_total > 57      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1137
1 2 3 4 range
A 1897
(-0.3)
P 		2517.2
(3)
P 		2210.4
(1.4)
P 		1395.6
(-3)
P 		1122
B 1866.3
(1.4)
P 		1866.5
(1.4)
P 		1959.6
(3)
P 		1609.6
(-3)
P 		350
C 1455.5
(-3)
P 		1926.3
(-0.4)
P 		2532.8
(3)
P 		1575.7
(-2.3)
P 		1077
avr 1739.6
(-1.2) 		2103.3
(1.9) 		2234.3
(3) 		1527
(-3) 		707

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1999
1 2 3 4 5 6 range
A 3216.1
(3)
P 		2391.9
(-2.5)
P 		2479.6
(-1.9)
P 		2803.4
(0.2)
P 		2470.2
(-2)
P 		2317.4
(-3)
P 		899
B 2738
(1.9)
P 		1652.1
(-3)
P 		1882
(-2)
P 		2977.6
(3)
P 		2716.6
(1.8)
P 		2569.5
(1.2)
P 		1326
C 1920.2
(-1.1)
P 		2108.4
(-0.5)
P 		2855.8
(1.7)
P 		3279.7
(3)
P 		2160.1
(-0.4)
P 		1280.9
(-3)
P 		1999
avr 2624.8
(0.6) 		2050.8
(-3) 		2405.8
(-0.8) 		3020.2
(3) 		2449
(-0.5) 		2055.9
(-3) 		969
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 678
1 2 3 4 range
A 690.7
(3)
P 		546.4
(1.2)
P 		577.8
(1.6)
P 		204.3
(-3)
P 		486
B 595.1
(3)
P 		461
(-0.2)
P 		454.1
(-0.4)
P 		343
(-3)
P 		252
C 481.8
(-0.9)
P 		553.8
(-0.2)
P 		882.7
(3)
P 		265.7
(-3)
P 		617
avr 589.2
(2.2) 		520.4
(1.1) 		638.2
(3) 		271
(-3) 		367

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 675
1 2 3 4 5 6 range
A 592.9
(-2)
P 		850.7
(3)
P 		540
(-3)
P 		711
(0.3)
P 		745.4
(1)
P 		564.2
(-2.5)
P 		311
B 952.7
(1.6)
P 		549.9
(-2.1)
P 		457
(-3)
P 		788.7
(0.1)
P 		1103.7
(3)
P 		958.2
(1.7)
P 		647
C 711.7
(2.7)
P 		643.3
(1.3)
P 		726.9
(3)
P 		659.5
(1.6)
P 		699
(2.4)
P 		428.8
(-3)
P 		298
avr 752.4
(0.9) 		681.3
(-0.7) 		574.6
(-3) 		719.7
(0.2) 		849.4
(3) 		650.4
(-1.3) 		275
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174271_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21877
Sequence Type Exemplar sequence
Representative Public ID C31702 NCBI
Target Description C31702_rc /REP_DB=TREMBL Accession /GB=C31702 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk290f9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_073566(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073566 NCBI Caenorhabditis elegans F55A11.1 (F55A11.1) mRNA, complete cds. 11/11 None
F55A11.1 ENSEMBL cdna:known chromosome:CEL140:V:11765825:11766967:-1 gene:F55A11.1 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
chrV:11765834-11766114(-) 100.0 100.0
Public Domain and Genome References
Gene Title EF hand domains
Ensembl F55A11.1
Entrez Gene 179610 Entrez gene
SwissProt Q20796 EMBL-EBI
WormBase CE05943 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1629791_AT dm
DROSGENOME1:142611_AT dm
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 CAA96655 Hypothetical protein F55A11.1 [Caenorhabditis elegans] ref|NP_505967.1| F55A11.1 [Caenorhabditis elegans] 1.0E-68
blast CAE75303 Hypothetical protein CBG23273 [Caenorhabditis briggsae] 3.0E-62
blast NP_789778 multiple coagulation factor deficiency 2 [Mus musculus] ref|NP_647456.1| multiple coagulation factor deficiency 2 [Mus musculus] dbj|BAE24757.1| unnamed protein product [Mus musculus] dbj|BAE30702.1| unnamed protein product [Mus musculus] gb|AAM28464.1| neural stem cell derived neuronal survival protein precursor [Mus musculus] dbj|BAC36914.1| unnamed protein product [Mus musculus] dbj|BAC36638.1| unnamed protein product [Mus musculus] dbj|BAC35955.1| unnamed protein product [Mus musculus] dbj|BAC28169.1| unnamed protein product [Mus musculus] sp|Q8K5B2|MCFD2_MOUSE Multiple coagulation factor deficiency protein 2 homolog precursor (Neural stem cell derived neuronal survival protein) 4.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.011
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.52
Sequence
Target Sequence 
>C. ELEGANS:174271_AT
gaattctgattaggacaacgatctaattaatagccataatttccaattcctcgtttccaa
agttttcaatgttttattaacattctacgtcttttgatgggttatatcgactgctgtaac
aaatcattttatcatactatcctcgtcacttttaacactttaactggtacataatagtca
gacaccctccccatttcccagtcctacaactttagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTCTGATTAGGACAACGATCTA 589 323 13 Antisense
TAGCCATAATTTCCAATTCCTCGTT 26 651 43 Antisense
TTCCTCGTTTCCAAAGTTTTCAATG 9 699 59 Antisense
AACATTCTACGTCTTTTGATGGGTT 417 137 91 Antisense
TGATGGGTTATATCGACTGCTGTAA 44 567 107 Antisense
GACTGCTGTAACAAATCATTTTATC 339 375 121 Antisense
ATTTTATCATACTATCCTCGTCACT 488 15 138 Antisense
TATCCTCGTCACTTTTAACACTTTA 200 657 150 Antisense
TTTAACACTTTAACTGGTACATAAT 17 673 163 Antisense
TACATAATAGTCAGACACCCTCCCC 509 643 180 Antisense
CATTTCCCAGTCCTACAACTTTAGT 345 215 204 Antisense
Sequence Source Affymetrix Proprietary Database