[Home] | [Total List]

[187207_at]

Description C06G4.3 /REP_DB=WormBase Gene ID /WP=CE00517 /TR=SW:P34309 /GB=AAA27941.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 45      4grp_total > 37      6grp_cgc > 46      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 4.8
(-2.6)
A 		33.8
(3)
A 		2.5
(-3)
A 		31.1
(2.5)
A 		31
B 5
(-3)
A 		7
(1)
A 		6.6
(0.2)
A 		8
(3)
A 		3
C 66.3
(3)
A 		8.6
(-2.7)
A 		15.5
(-2)
A 		5.1
(-3)
A 		61
avr 25.4
(3) 		16.5
(-0.1) 		8.2
(-3) 		14.7
(-0.7) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 69.5
(3)
A 		8
(-2.6)
A 		17
(-1.8)
A 		4.8
(-2.9)
A 		3.7
(-3)
A 		48.4
(1.1)
A 		66
B 7.1
(-2.1)
A 		8.8
(-1.8)
A 		32.4
(3)
A 		4.7
(-2.6)
A 		2.7
(-3)
A 		30.3
(2.6)
A 		30
C 25
(-0.2)
A 		6.8
(-2.5)
A 		50.5
(3)
A 		3.3
(-2.9)
A 		2.6
(-3)
A 		8
(-2.3)
A 		48
avr 33.9
(3) 		7.9
(-2) 		33.3
(2.9) 		4.3
(-2.7) 		3
(-3) 		28.9
(2) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 1.7
(-2.1)
A 		7.3
(3)
A 		0.7
(-3)
A 		4.6
(0.5)
A 		7
B 1.6
(0)
A 		1.7
(3)
A 		1.5
(-3)
A 		1.7
(3)
A 		0
C 22
(3)
A 		2.5
(-2.5)
A 		5.4
(-1.7)
A 		0.9
(-3)
A 		21
avr 8.4
(3) 		3.8
(-1.6) 		2.5
(-2.9) 		2.4
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 12.8
(3)
A 		2.8
(-2.1)
A 		3.7
(-1.7)
A 		1.2
(-2.9)
A 		1.1
(-3)
A 		11.8
(2.5)
A 		12
B 2.5
(-2.2)
A 		2.9
(-1.9)
A 		7.9
(1)
A 		1.2
(-2.9)
A 		1.1
(-3)
A 		11.3
(3)
A 		10
C 9.3
(1.3)
A 		2.1
(-2.3)
A 		12.8
(3)
A 		0.7
(-3)
A 		0.8
(-3)
A 		2.7
(-2)
A 		12
avr 8.2
(2.7) 		2.6
(-1.7) 		8.1
(2.6) 		1
(-3) 		1
(-3) 		8.6
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187207_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7528
Sequence Type Exemplar sequence
Representative Public ID C06G4.3 NCBI
Target Description C06G4.3 /REP_DB=WormBase Gene ID /WP=CE00517 /TR=SW:P34309 /GB=AAA27941.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_066340(10), NM_066339(10), NM_171886(10), NM_171201(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066340 NCBI Caenorhabditis elegans CaLPain family member (clp-1) (clp-1) mRNA, complete cds. 10/11 A 
NM_066339 NCBI Caenorhabditis elegans CaLPain family member (clp-1) (clp-1) mRNA, complete cds. 10/11 A 
NM_171886 NCBI Caenorhabditis elegans CaLPain family member (clp-1) (clp-1) mRNA, complete cds. 10/11 A 
NM_171201 NCBI Caenorhabditis elegans CaLPain family member (clp-1) (clp-1) mRNA, complete cds. 11/11 None
GENEFINDER00000040336 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7979930:7986307:1 10/11 None
SNAP00000040329 ENSEMBL cdna:SNAP chromosome:CEL140:III:7981093:7985847:1 10/11 None
C06G4.2a.1 ENSEMBL cdna:known chromosome:CEL140:III:7980991:7985956:1 gene:C06G4.2 10/11 A 
C06G4.2a.2 ENSEMBL cdna:known chromosome:CEL140:III:7980998:7985956:1 gene:C06G4.2 10/11 A 
C06G4.2b.1 ENSEMBL cdna:known chromosome:CEL140:III:7980998:7986252:1 gene:C06G4.2 10/11 None
C06G4.2d ENSEMBL cdna:known chromosome:CEL140:III:7981093:7986238:1 gene:C06G4.2 10/11 A 
C06G4.2c ENSEMBL cdna:known chromosome:CEL140:III:7981093:7981528:1 gene:C06G4.2 11/11 None
C06G4.2b.3 ENSEMBL cdna:known chromosome:CEL140:III:7981093:7986238:1 gene:C06G4.2 10/11 None
C06G4.2b.2 ENSEMBL cdna:known chromosome:CEL140:III:7981093:7986558:1 gene:C06G4.2 10/11 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
chrIII:7981090-7981526(+) 84.21 100.0
Public Domain and Genome References
Ensembl C06G4.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM15551 Calpain family protein 1, isoform d [Caenorhabditis elegans] ref|NP_741237.1| CaLPain family member (clp-1) [Caenorhabditis elegans] 0.0
blast AAV58887 Calpain family protein 1, isoform a [Caenorhabditis elegans] ref|NP_498741.3| CaLPain family member (clp-1) [Caenorhabditis elegans] sp|P34308|CAN_CAEEL Calpain clp-1 0.0
blast AAV58888 Calpain family protein 1, isoform b [Caenorhabditis elegans] ref|NP_498740.2| CaLPain family member (clp-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.5E-97
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 5.1E-101
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.5E-97
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.5E-29
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 4.5E-43
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 1.0E-126
Pfam IPR001300 EMBL-EBI Peptidase C2, calpain 2.5E-97
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741238.1 1 58-80
C06G4.2c 1 58-80
Sequence
Target Sequence 
>C. ELEGANS:187207_AT
aagtcgaagtgaagccggatgaattcaatggattaattggatcaattgctggtaacctga
ttagagataaggtcggtggcgccggtggtgatatccttggaggccttgccagtaacttct
tcggaggtggaggcggcggaggaggcggcggcggaggcggaggtttcggtggtggaaatg
gaggattcggtggaggtatttttattttcaaaattgtcagacaaaaattccctaaaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCGAAGTGAAGCCGGATGAATT 20 159 44 Antisense
GAAGCCGGATGAATTCAATGGATTA 243 345 54 Antisense
GATCAATTGCTGGTAACCTGATTAG 688 421 83 Antisense
TGCTGGTAACCTGATTAGAGATAAG 66 579 90 Antisense
AGAGATAAGGTCGGTGGCGCCGGTG 96 65 106 Antisense
CGCCGGTGGTGATATCCTTGGAGGC 267 257 123 Antisense
GATATCCTTGGAGGCCTTGCCAGTA 651 425 133 Antisense
TGGAGGCCTTGCCAGTAACTTCTTC 366 549 141 Antisense
GCCTTGCCAGTAACTTCTTCGGAGG 375 281 146 Antisense
GCCAGTAACTTCTTCGGAGGTGGAG 108 1 151 Antisense
TGTCAGACAAAAATTCCCTAAAAAT 680 557 258 Antisense
Sequence Source Affymetrix Proprietary Database