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[171792_x_at] Troponin

Description C58362_rc /REP_DB=TREMBL Accession /GB=C58362 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk366a8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 22      6grp_highest_nonorm > 61      6grp_total > 22      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 42      6grp_high1_sub > De      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 534
1 2 3 4 range
A 531.4
(3)
P 		495.8
(2.6)
P 		457.5
(2.1)
P 		44.2
(-3)
A 		487
B 578.3
(3)
P 		399.8
(0.9)
P 		355.9
(0.3)
P 		76
(-3)
A 		502
C 466.8
(3)
P 		440.9
(2.6)
P 		464.2
(3)
P 		56.4
(-3)
A 		410
avr 525.5
(3) 		445.5
(2) 		425.9
(1.7) 		58.9
(-3) 		467

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 608
1 2 3 4 5 6 range
A 390.5
(0.7)
P 		571.8
(3)
P 		488.1
(1.9)
P 		410.5
(0.9)
P 		399.6
(0.8)
P 		107.8
(-3)
P 		464
B 563.4
(2.1)
P 		600.4
(2.7)
P 		621.3
(3)
P 		324.5
(-1.6)
P 		558.9
(2)
P 		232.7
(-3)
P 		389
C 665
(2.4)
P 		715.5
(3)
P 		532.3
(0.8)
P 		314.1
(-1.9)
P 		584.9
(1.4)
P 		226.6
(-3)
P 		489
avr 539.6
(1.8) 		629.2
(3) 		547.2
(1.9) 		349.7
(-0.8) 		514.5
(1.4) 		189
(-3) 		440
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 193.5
(3)
P 		107.6
(0.2)
P 		119.6
(0.6)
P 		6.5
(-3)
A 		187
B 184.4
(3)
P 		98.7
(-0.1)
P 		82.5
(-0.6)
P 		16.2
(-3)
A 		168
C 154.5
(2.7)
P 		126.7
(1.6)
P 		161.8
(3)
P 		9.5
(-3)
A 		152
avr 177.5
(3) 		111
(0.6) 		121.3
(1) 		10.7
(-3) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 220
1 2 3 4 5 6 range
A 72
(-1.5)
P 		203.4
(3)
P 		106.3
(-0.3)
P 		104.1
(-0.4)
P 		120.6
(0.2)
P 		26.3
(-3)
P 		177
B 196
(1.7)
P 		199.9
(1.8)
P 		150.9
(-0.2)
P 		85.9
(-3)
P 		227.1
(3)
P 		86.8
(-3)
P 		141
C 246.5
(3)
P 		218.3
(2.1)
P 		135.5
(-0.6)
P 		63.2
(-3)
P 		189.3
(1.1)
P 		75.9
(-2.6)
P 		183
avr 171.5
(1.5) 		207.2
(3) 		130.9
(-0.2) 		84.4
(-2.1) 		179
(1.8) 		63
(-3) 		144
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171792_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27953
Sequence Type Exemplar sequence
Representative Public ID C58362 NCBI
Target Description C58362_rc /REP_DB=TREMBL Accession /GB=C58362 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk366a8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074849
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074849 NCBI Caenorhabditis elegans T20B3.2 (Troponin) mRNA, complete cds. A 
SNAP00000028349 ENSEMBL cdna:SNAP chromosome:CEL140:V:16836367:16837690:-1 None
T20B3.2 ENSEMBL cdna:known chromosome:CEL140:V:16836241:16837709:-1 gene:T20B3.2 A 
GENEFINDER00000028362 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16836346:16837690:-1 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:16836411-16837100(-) 78.0 78.0
Public Domain and Genome References
Gene Title Troponin
Gene Symbol tni-3
Ensembl T20B3.2
Entrez Gene 180127 Entrez gene
SwissProt Q9XUN9 EMBL-EBI
WormBase CE20087 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04737 Hypothetical protein T20B3.2 [Caenorhabditis elegans] ref|NP_507250.1| T20B3.2 [Caenorhabditis elegans] dbj|BAD89380.1| troponin I 3 [Caenorhabditis elegans] sp|Q9XUN9|TNNI3_CAEEL Troponin I 3 (TnI 3) 1.0E-101
blast CAE56607 Hypothetical protein CBG24362 [Caenorhabditis briggsae] 3.0E-94
blast AAG01564 Uncoordinated protein 27 [Caenorhabditis elegans] ref|NP_509488.1| UNCoordinated family member (unc-27) [Caenorhabditis elegans] 6.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR001978 EMBL-EBI Troponin 1.2E-33
Sequence
Target Sequence 
>C. ELEGANS:171792_X_AT
ggagacggaccttgacgaaatcatggcaaagaagaagggaaccgccgacggaaaaccaga
atggtnnnnnnnnnnnnnnnnnnnnnnnnnnnntgcaccagtggaactagctgctccagt
ngagccagaggccgagccagaaccagaagcc

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGACGGACCTTGACGAAATCATG 435 513 87 Antisense
GAGACGGACCTTGACGAAATCATGG 584 383 88 Antisense
GACGGACCTTGACGAAATCATGGCA 106 377 90 Antisense
GGACCTTGACGAAATCATGGCAAAG 574 523 93 Antisense
ACCTTGACGAAATCATGGCAAAGAA 141 87 95 Antisense
GCAAAGAAGAAGGGAACCGCCGACG 565 287 112 Antisense
GAACCGCCGACGGAAAACCAGAATG 196 313 125 Antisense
TGCACCAGTGGAACTAGCTGCTCCA 611 577 180 Antisense
CACCAGTGGAACTAGCTGCTCCAGT 61 203 182 Antisense
CCAGAGGCCGAGCCAGAACCAGAAG 3 273 211 Antisense
AGAGGCCGAGCCAGAACCAGAAGCC 156 67 213 Antisense
Sequence Source Affymetrix Proprietary Database