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[188726_at]

Description C06G4.2 /REP_DB=WormBase Gene ID /WP=CE27666 /TR=SW:P34308 /GB=AAA27940.2 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Calpain
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 48      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 67      6grp_total > 38      4grp_total > 46      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1404
1 2 3 4 range
A 2421.7
(3)
P 		1518.2
(-0.9)
P 		1269.6
(-1.9)
P 		1017.5
(-3)
P 		1404
B 1852.6
(3)
P 		1580.8
(0.4)
P 		1229.2
(-3)
P 		1263.8
(-2.7)
P 		623
C 2039.6
(3)
P 		1612
(0.1)
P 		1352.1
(-1.6)
P 		1146.1
(-3)
P 		894
avr 2104.6
(3) 		1570.3
(-0.3) 		1283.6
(-2.1) 		1142.5
(-3) 		962

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1081
1 2 3 4 5 6 range
A 2267.2
(2.4)
P 		2130.4
(1.6)
P 		1514.3
(-1.8)
P 		1294.9
(-3)
P 		1952.6
(0.7)
P 		2376
(3)
P 		1081
B 2090.1
(1.9)
P 		2085.3
(1.8)
P 		1529.5
(-3)
P 		1726.8
(-1.3)
P 		1632.7
(-2.1)
P 		2220.5
(3)
P 		691
C 2358
(3)
P 		2063.8
(1)
P 		1753.6
(-1.2)
P 		1493
(-3)
P 		1983.9
(0.4)
P 		1888.8
(-0.3)
P 		865
avr 2238.4
(3) 		2093.2
(1.8) 		1599.1
(-2.2) 		1504.9
(-3) 		1856.4
(-0.1) 		2161.8
(2.4) 		734
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 733
1 2 3 4 range
A 881.8
(3)
P 		329.6
(-1.5)
P 		331.9
(-1.5)
P 		148.9
(-3)
P 		733
B 590.8
(3)
P 		390.4
(-0.7)
P 		284.8
(-2.7)
P 		269.3
(-3)
P 		322
C 675.2
(3)
P 		463.4
(0.4)
P 		471.3
(0.5)
P 		193.2
(-3)
P 		482
avr 715.9
(3) 		394.5
(-0.8) 		362.7
(-1.1) 		203.8
(-3) 		512

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 574
1 2 3 4 5 6 range
A 417.9
(-1.7)
P 		757.7
(3)
P 		329.8
(-3)
P 		328.4
(-3)
P 		589.2
(0.6)
P 		578.5
(0.5)
P 		429
B 727.2
(1.7)
P 		694.1
(1.2)
P 		371.4
(-3)
P 		457.4
(-1.9)
P 		663.4
(0.8)
P 		828
(3)
P 		457
C 874
(3)
P 		629.7
(0.4)
P 		446.3
(-1.5)
P 		300.2
(-3)
P 		642
(0.6)
P 		632.3
(0.5)
P 		574
avr 673
(2.6) 		693.8
(3) 		382.5
(-2.6) 		362
(-3) 		631.5
(1.9) 		679.6
(2.7) 		332
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188726_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7629
Sequence Type Exemplar sequence
Representative Public ID C06G4.2 NCBI
Target Description C06G4.2 /REP_DB=WormBase Gene ID /WP=CE27666 /TR=SW:P34308 /GB=AAA27940.2 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Calpain
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_066340(10), NM_066339(10), NM_171886(10)
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 
GENEFINDER00000040336 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7979930:7986307:1 11/11 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 11/11 None
C06G4.2d ENSEMBL cdna:known chromosome:CEL140:III:7981093:7986238:1 gene:C06G4.2 10/11 A 
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.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176122 4 3 NM_066339 174918_at (11), 188726_at (10)
NM_066340 188726_at (10)
NM_171886 174918_at (11), 188726_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7981656-7985845(+) 100.0 100.0
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
Sequence
Target Sequence 
>C. ELEGANS:188726_AT
gcattcttcgaatccgtaatccatggggaaatgaacaggaatggaatggaccatggtcag
acaattcacgcgaatggcgaagtgttccagattctgtaaaacaagatatgggactgaaat
tcgatcatgatggagagttttggatgtcatttgatgattttatgaggaatttcgagaaaa
tggaaatttgcaatcttggaccagatgttatggatgaagtctatcaaatgactggtgtca
aggccgctggaatggtttgggctgcaaatactcatgatggtgcatgggttagaaatcaaa
cagctggaggatgcaggaattacatcaacactttcgccaacaatccacaattccgagttc
aacttaccgattcggatcctgatgatgatgatgaactctgcactgccggaaataaccgtg
gtcgactgagtaaacagttcttcgctgccaacaaatccgcgatgagatcggccgctttca
tcaatttaagagagatgactggccgcttccgtgtacccccgggcaactatgttgtcgttc
catca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATTCTTCGAATCCGTAATCCATG 608 307 1358 Antisense
GGACCATGGTCAGACAATTCACGCG 285 523 1405 Antisense
AATGACTGGTGTCAAGGCCGCTGGA 150 159 1584 Antisense
GGCCGCTGGAATGGTTTGGGCTGCA 280 543 1599 Antisense
TTACATCAACACTTTCGCCAACAAT 625 683 1677 Antisense
CAATCCACAATTCCGAGTTCAACTT 135 183 1698 Antisense
GATGAACTCTGCACTGCCGGAAATA 630 411 1747 Antisense
TTCTTCGCTGCCAACAAATCCGCGA 153 691 1795 Antisense
AAATCCGCGATGAGATCGGCCGCTT 613 117 1810 Antisense
ATCGGCCGCTTTCATCAATTTAAGA 77 35 1824 Antisense
GGGCAACTATGTTGTCGTTCCATCA 663 493 1878 Antisense
Sequence Source Affymetrix Proprietary Database