[Home] | [Total List]

[190659_s_at] calcium binding protein

Description F54C1.7 /REP_DB=WormBase Gene ID /WP=CE11052 /TR=P91328 /GB=AAK21395.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=calcium binding protein
Cluster 6grp_highest_10_10 > 26      6grp_high1_10_10 > 62      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 08      6grp_total > 62      4grp_total > 57      6grp_highest_sub > 03      6grp_cgc > 93      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9137
1 2 3 4 range
A 12645.3
(-2)
P 		17443.5
(1.7)
P 		19195.7
(3)
P 		11300.4
(-3)
P 		7895
B 12787.5
(-1.7)
P 		17118.9
(1.4)
P 		19436.3
(3)
P 		10993.1
(-3)
P 		8443
C 12016.2
(-1.6)
P 		17684.7
(3)
P 		16690
(2.2)
P 		10298.9
(-3)
P 		7386
avr 12483
(-1.7) 		17415.7
(2.2) 		18440.7
(3) 		10864.1
(-3) 		7577

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10281
1 2 3 4 5 6 range
A 17276
(-1.6)
P 		16152.8
(-2.8)
P 		21535.4
(3)
P 		21350.2
(2.8)
P 		16161.2
(-2.8)
P 		15948.3
(-3)
P 		5587
B 15668.9
(-1.7)
P 		16166.5
(-1.4)
P 		23680.3
(3)
P 		17889.6
(-0.4)
P 		15724.6
(-1.6)
P 		13399.3
(-3)
P 		10281
C 15280.7
(-2.3)
P 		16730.4
(-1.2)
P 		22562.7
(3)
P 		21889.6
(2.5)
P 		17313.4
(-0.8)
P 		14250.4
(-3)
P 		8312
avr 16075.2
(-1.9) 		16349.9
(-1.6) 		22592.8
(3) 		20376.5
(1.4) 		16399.7
(-1.6) 		14532.7
(-3) 		8060
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4163
1 2 3 4 range
A 4604.2
(2.3)
P 		3786.5
(0.8)
P 		5018.1
(3)
P 		1654.2
(-3)
P 		3364
B 4077.8
(1.8)
P 		4228
(2.2)
P 		4503.8
(3)
P 		2342.6
(-3)
P 		2161
C 3977.7
(0.3)
P 		5084.4
(1.9)
P 		5817
(3)
P 		1736.6
(-3)
P 		4080
avr 4219.9
(1.3) 		4366.3
(1.6) 		5113
(3) 		1911.1
(-3) 		3202

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3204
1 2 3 4 5 6 range
A 3184.7
(-3)
P 		5744.7
(3)
P 		4690
(0.5)
P 		5414.9
(2.2)
P 		4876.8
(1)
P 		3882.9
(-1.4)
P 		2560
B 5452
(-0.4)
P 		5381.2
(-0.7)
P 		5750.3
(0.7)
P 		4738.3
(-3)
P 		6388.7
(3)
P 		4996.6
(-2.1)
P 		1650
C 5663.9
(2.6)
P 		5104.9
(0.1)
P 		5742.6
(3)
P 		4402
(-3)
P 		5602.4
(2.4)
P 		4770.4
(-1.4)
P 		1341
avr 4766.9
(-1.8) 		5410.3
(1.8) 		5394.3
(1.7) 		4851.7
(-1.3) 		5622.6
(3) 		4550
(-3) 		1073
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190659_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1093
Sequence Type Exemplar sequence
Representative Public ID F54C1.7 NCBI
Target Description F54C1.7 /REP_DB=WormBase Gene ID /WP=CE11052 /TR=P91328 /GB=AAK21395.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=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_059100(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059100 NCBI Caenorhabditis elegans Paralysed Arrest at Two-fold family member (pat-10) (pat-10) mRNA, complete cds. 11/11 A 
F54C1.7.3 ENSEMBL cdna:known chromosome:CEL140:I:5018782:5020580:-1 gene:F54C1.7 11/11 A 
F54C1.7.1 ENSEMBL cdna:known chromosome:CEL140:I:5018782:5020140:-1 gene:F54C1.7 11/11 A 
F54C1.7.2 ENSEMBL cdna:known chromosome:CEL140:I:5018866:5020579:-1 gene:F54C1.7 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
chrI:5019002-5019993(-) 99.59 99.59
Public Domain and Genome References
Gene Title calcium binding protein
Gene Symbol pat-10
Ensembl F54C1.7
Entrez Gene 172127 Entrez gene
SwissProt P91328 EMBL-EBI
WormBase CE11052 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
43292 contractile fiber inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
8307 structural constituent of muscle inferred from sequence similarity QuickGO AmiGO
5509 calcium ion binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK21395 Paralysed arrest at two-fold protein 10 [Caenorhabditis elegans] ref|NP_491501.1| Paralysed Arrest at Two-fold family member (pat-10) [Caenorhabditis elegans] emb|CAE65696.1| Hypothetical protein CBG10771 [Caenorhabditis briggsae] dbj|BAA82524.1| troponin C [Caenorhabditis elegans] dbj|BAA82523.1| troponin C [Caenorhabditis elegans] 4.0E-80
blast CAB58171 troponin-like protein [Anisakis simplex] 4.0E-75
blast AAW56830 troponin C-like protein [Meloidogyne incognita] 3.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.054
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 9.8E-8
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 3.5E-7
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 1.8E-6
Sequence
Target Sequence 
>C. ELEGANS:190659_S_AT
tcttgctgaaatcgacggatcccaaattgaggaataccaaaagttcttcgatgccttcga
cagaggaaagcaaggatacatcatggccactcagatcggtcaaatcatgcatggaatgga
acaggatttcgatgagaagacccttcgtaaactgatccgcaagttcgacgctgacggttc
cggaaagctcgagtttgacgagttctgcgctctcgtgtacaccgttgcaaacactgtcga
caaggaaacattggagaaagaacttcgtgaagctttccgtcttttcgacaaggagg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTGCTGAAATCGACGGATCCCAA 558 607 36 Antisense
AAAGTTCTTCGATGCCTTCGACAGA 695 121 75 Antisense
GCAAGGATACATCATGGCCACTCAG 288 319 105 Antisense
TGGCCACTCAGATCGGTCAAATCAT 532 543 119 Antisense
GAAGACCCTTCGTAAACTGATCCGC 445 339 171 Antisense
GATCCGCAAGTTCGACGCTGACGGT 234 415 189 Antisense
CTGACGGTTCCGGAAAGCTCGAGTT 545 235 206 Antisense
GAGTTTGACGAGTTCTGCGCTCTCG 219 399 226 Antisense
GTACACCGTTGCAAACACTGTCGAC 305 459 252 Antisense
AGAACTTCGTGAAGCTTTCCGTCTT 142 73 294 Antisense
GCTTTCCGTCTTTTCGACAAGGAGG 488 303 307 Antisense
Sequence Source Affymetrix Proprietary Database