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[174768_s_at] calcium binding protein

Description CEK083G7R_rc /REP_DB=TREMBL Accession /GB=D71915 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk83g7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 26      6grp_high1_10_10 > 51      4grp_highest_8_8 > 02      4grp_high_8_8 > 54      6grp_highest_nonorm > 28      6grp_total > 52      4grp_total > 49      6grp_highest_sub > 03      6grp_cgc > 83      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5354
1 2 3 4 range
A 6039.1
(-2.2)
P 		9794.6
(2.8)
P 		9928.9
(3)
P 		5468.2
(-3)
P 		4461
B 5382.7
(-3)
P 		10356.6
(3)
P 		9490.5
(2)
P 		5461.6
(-2.9)
P 		4974
C 6093.3
(-2.1)
P 		10070
(2.4)
P 		10627.3
(3)
P 		5273.2
(-3)
P 		5354
avr 5838.4
(-2.4) 		10073.7
(3) 		10015.6
(2.9) 		5401
(-3) 		4673

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7138
1 2 3 4 5 6 range
A 8683.6
(-0.9)
P 		8499.2
(-1.1)
P 		13369.9
(3)
P 		10244.5
(0.4)
P 		9051.9
(-0.6)
P 		6232.2
(-3)
P 		7138
B 9420.2
(-1.6)
P 		9826
(-1.1)
P 		13068.7
(3)
P 		10901.6
(0.3)
P 		9297.4
(-1.7)
P 		8294.1
(-3)
P 		4775
C 8298.3
(-3)
P 		10345.2
(3)
P 		9792.9
(1.4)
P 		9885
(1.7)
P 		10110.2
(2.3)
P 		8733.1
(-1.7)
P 		2047
avr 8800.7
(-1.5) 		9556.8
(-0.5) 		12077.2
(3) 		10343.7
(0.6) 		9486.5
(-0.6) 		7753.1
(-3) 		4324
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2904
1 2 3 4 range
A 2198.8
(1.7)
P 		2126.2
(1.4)
P 		2595.6
(3)
P 		800.4
(-3)
P 		1795
B 1716.5
(-0.6)
P 		2557.9
(3)
P 		2199.2
(1.5)
P 		1163.9
(-3)
P 		1394
C 2017
(-0.6)
P 		2895.2
(1.3)
P 		3704
(3)
P 		889.2
(-3)
P 		2815
avr 1977.4
(0.3) 		2526.4
(2) 		2832.9
(3) 		951.2
(-3) 		1882

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2260
1 2 3 4 5 6 range
A 1600.8
(-2.7)
P 		3022.7
(3)
P 		2911.7
(2.6)
P 		2598.2
(1.3)
P 		2731.5
(1.8)
P 		1517.3
(-3)
P 		1505
B 3277.8
(-0.4)
P 		3270.7
(-0.4)
P 		3173.5
(-1.1)
P 		2887.5
(-3)
P 		3777.4
(3)
P 		3092.8
(-1.6)
P 		890
C 3075.8
(2.1)
P 		3156.6
(2.5)
P 		2492.5
(-0.6)
P 		1987.9
(-3)
P 		3271.5
(3)
P 		2923.5
(1.4)
P 		1284
avr 2651.5
(-1.7) 		3150
(2.1) 		2859.2
(-0.1) 		2491.2
(-3) 		3260.1
(3) 		2511.2
(-2.8) 		769
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174768_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20358
Sequence Type Exemplar sequence
Representative Public ID CEK083G7R NCBI
Target Description CEK083G7R_rc /REP_DB=TREMBL Accession /GB=D71915 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk83g7 : 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_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:5018806-5019231(-) 98.77 98.77
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:174768_S_AT
gtaacggatatatttctcgaccaactctgaaggctcttctcaaagaaatcgccgatgacc
tcaccgatcaacaactcgaggaggctgtcgacgagattgacgaggacggttccggaaaga
ttgagttcgaggagttctgggagttgatggctggagagtctgatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAACGGATATATTTCTCGACCAAC 697 461 25 Antisense
GGATATATTTCTCGACCAACTCTGA 77 511 30 Antisense
TATTTCTCGACCAACTCTGAAGGCT 37 663 35 Antisense
GAAGGCTCTTCTCAAAGAAATCGCC 156 333 53 Antisense
AAAGAAATCGCCGATGACCTCACCG 708 121 66 Antisense
GATCAACAACTCGAGGAGGCTGTCG 306 421 90 Antisense
GAGGAGGCTGTCGACGAGATTGACG 635 403 102 Antisense
GACGAGGACGGTTCCGGAAAGATTG 353 357 123 Antisense
GATTGAGTTCGAGGAGTTCTGGGAG 238 435 143 Antisense
GGAGTTCTGGGAGTTGATGGCTGGA 675 517 155 Antisense
GAGTTGATGGCTGGAGAGTCTGATT 604 397 165 Antisense
Sequence Source Affymetrix Proprietary Database